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393
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jones
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/**
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* '$RCSfile$'
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* Purpose: A Class that represents an XML document
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* Copyright: 2000 Regents of the University of California and the
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* National Center for Ecological Analysis and Synthesis
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* Authors: Matt Jones
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* Release: @release@
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*
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* '$Author$'
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* '$Date$'
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* '$Revision$'
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669
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jones
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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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393
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jones
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*/
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package edu.ucsb.nceas.metacat;
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2076
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jones
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import java.io.BufferedInputStream;
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31 |
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import java.io.BufferedOutputStream;
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32 |
429
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jones
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import java.io.File;
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33 |
2076
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jones
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import java.io.FileOutputStream;
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34 |
429
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jones
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import java.io.IOException;
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35 |
2076
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jones
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import java.io.InputStream;
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393
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jones
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import java.io.PrintWriter;
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429
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jones
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import java.io.Reader;
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import java.io.StringWriter;
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39 |
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import java.io.Writer;
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2076
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jones
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import java.net.URL;
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import java.sql.PreparedStatement;
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42 |
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import java.sql.ResultSet;
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import java.sql.SQLException;
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44 |
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import java.util.Enumeration;
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45 |
1432
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tao
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import java.util.Hashtable;
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429
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jones
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import java.util.Iterator;
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47 |
407
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jones
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import java.util.Stack;
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48 |
429
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jones
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import java.util.TreeSet;
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49 |
1432
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tao
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import java.util.Vector;
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50 |
407
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jones
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2076
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jones
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import edu.ucsb.nceas.dbadapter.AbstractDatabase;
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407
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jones
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import org.xml.sax.ContentHandler;
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54 |
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import org.xml.sax.DTDHandler;
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import org.xml.sax.EntityResolver;
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import org.xml.sax.ErrorHandler;
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import org.xml.sax.InputSource;
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import org.xml.sax.XMLReader;
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import org.xml.sax.helpers.XMLReaderFactory;
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393
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jones
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/**
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* A class that represents an XML document. It can be created with a simple
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407
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jones
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* document identifier from a database connection. It also will write an
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64 |
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* XML text document to a database connection using SAX.
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393
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jones
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*/
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66 |
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public class DocumentImpl {
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67 |
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1407
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tao
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/* Constants */
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69 |
1441
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tao
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public static final String SCHEMA = "Schema";
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70 |
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public static final String DTD = "DTD";
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71 |
2163
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tao
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public static final String EML200 = "eml200";
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72 |
2169
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sgarg
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public static final String EML210 = "eml210";
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73 |
2092
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tao
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public static final String EXTERNALSCHEMALOCATIONPROPERTY =
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74 |
1383
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tao
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"http://apache.org/xml/properties/schema/external-schemaLocation";
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2092
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tao
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/*public static final String EXTERNALSCHEMALOCATION =
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1390
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tao
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"eml://ecoinformatics.org/eml-2.0.0 http://dev.nceas.ucsb.edu/tao/schema/eml.xsd"+
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77 |
1407
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tao
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" http://www.xml-cml.org/schema/stmml http://dev.nceas.ucsb.edu/tao/schema/stmml.xsd";*/
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78 |
1383
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tao
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public static final String DECLARATIONHANDLERPROPERTY =
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"http://xml.org/sax/properties/declaration-handler";
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80 |
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public static final String LEXICALPROPERTY =
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"http://xml.org/sax/properties/lexical-handler";
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82 |
2092
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tao
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public static final String VALIDATIONFEATURE =
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83 |
1383
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tao
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"http://xml.org/sax/features/validation";
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84 |
2092
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tao
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public static final String SCHEMAVALIDATIONFEATURE =
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85 |
1383
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tao
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"http://apache.org/xml/features/validation/schema";
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86 |
2092
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tao
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public static final String NAMESPACEFEATURE =
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87 |
1383
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tao
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"http://xml.org/sax/features/namespaces";
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88 |
2092
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tao
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public static final String NAMESPACEPREFIXESFEATURE =
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89 |
1383
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tao
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"http://xml.org/sax/features/namespace-prefixes";
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90 |
2169
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sgarg
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public static final String EML2_1_0NAMESPACE =
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91 |
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MetaCatUtil.getOption("eml2_1_0namespace");
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1551
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tao
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// "eml://ecoinformatics.org/eml-2.0.0";
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93 |
2169
|
sgarg
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public static final String EML2_0_0NAMESPACE =
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MetaCatUtil.getOption("eml2_0_0namespace");
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95 |
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// "eml://ecoinformatics.org/eml-2.0.0";
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96 |
2092
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tao
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97 |
2169
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sgarg
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1804
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tao
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public static final String DOCNAME = "docname";
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99 |
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public static final String PUBLICID = "publicid";
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100 |
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public static final String SYSTEMID = "systemid";
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101 |
425
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bojilova
|
static final int ALL = 1;
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102 |
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static final int WRITE = 2;
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103 |
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static final int READ = 4;
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104 |
777
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bojilova
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private static final AbstractDatabase dbAdapter = MetaCatUtil.dbAdapter;
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425
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bojilova
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106 |
1217
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tao
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private DBConnection connection = null;
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107 |
393
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jones
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private String docid = null;
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108 |
956
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tao
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private String updatedVersion=null;
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109 |
393
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jones
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private String docname = null;
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110 |
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private String doctype = null;
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111 |
1441
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tao
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private String validateType = null; //base on dtd or schema
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112 |
691
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bojilova
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// DOCTITLE attr cleared from the db
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113 |
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// private String doctitle = null;
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114 |
465
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berkley
|
private String createdate = null;
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115 |
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private String updatedate = null;
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116 |
393
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jones
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private String system_id = null;
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117 |
561
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berkley
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private String userowner = null;
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118 |
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private String userupdated = null;
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119 |
575
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berkley
|
private int rev;
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120 |
561
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berkley
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private int serverlocation;
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121 |
1059
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tao
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private String docHomeServer;
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122 |
2092
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tao
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private String publicaccess;
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123 |
393
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jones
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private long rootnodeid;
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124 |
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private ElementNode rootNode = null;
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125 |
429
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jones
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private TreeSet nodeRecordList = null;
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126 |
2092
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tao
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//private static
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127 |
1292
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tao
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//ReplicationServerList serverList = new ReplicationServerList();
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128 |
2092
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tao
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|
129 |
790
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bojilova
|
/**
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130 |
800
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jones
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* Constructor used to create a document and read the document information
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131 |
2092
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tao
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* from the database. If readNodes is false, then the node data is not
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132 |
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* read at this time, but is deferred until it is needed (such as when a
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133 |
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* call to toXml() is made).
|
134 |
790
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bojilova
|
*
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135 |
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* @param conn the database connection from which to read the document
|
136 |
800
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jones
|
* @param docid the identifier of the document to be created
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137 |
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* @param readNodes flag indicating whether the xmlnodes should be read
|
138 |
790
|
bojilova
|
*/
|
139 |
2092
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tao
|
public DocumentImpl(String docid, boolean readNodes)
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140 |
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throws McdbException
|
141 |
790
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bojilova
|
{
|
142 |
801
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jones
|
try {
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143 |
1217
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tao
|
//this.conn = conn;
|
144 |
801
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jones
|
this.docid = docid;
|
145 |
2092
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tao
|
|
146 |
801
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jones
|
// Look up the document information
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147 |
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getDocumentInfo(docid);
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148 |
2092
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tao
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|
149 |
801
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jones
|
if (readNodes) {
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150 |
800
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jones
|
// Download all of the document nodes using a single SQL query
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151 |
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// The sort order of the records is determined by the NodeComparator
|
152 |
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// class, and needs to represent a depth-first traversal for the
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153 |
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// toXml() method to work properly
|
154 |
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nodeRecordList = getNodeRecordList(rootnodeid);
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155 |
2092
|
tao
|
|
156 |
801
|
jones
|
}
|
157 |
2092
|
tao
|
|
158 |
801
|
jones
|
} catch (McdbException ex) {
|
159 |
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throw ex;
|
160 |
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} catch (Throwable t) {
|
161 |
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throw new McdbException("Error reading document from " +
|
162 |
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"DocumentImpl.DocumentImpl: " + docid);
|
163 |
800
|
jones
|
}
|
164 |
790
|
bojilova
|
}
|
165 |
393
|
jones
|
|
166 |
|
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/**
|
167 |
2092
|
tao
|
* Constructor, creates document from database connection, used
|
168 |
396
|
jones
|
* for reading the document
|
169 |
393
|
jones
|
*
|
170 |
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* @param conn the database connection from which to read the document
|
171 |
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* @param docid the identifier of the document to be created
|
172 |
|
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*/
|
173 |
2092
|
tao
|
public DocumentImpl(String docid) throws McdbException
|
174 |
393
|
jones
|
{
|
175 |
1217
|
tao
|
this(docid, true);
|
176 |
393
|
jones
|
}
|
177 |
|
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178 |
2092
|
tao
|
|
179 |
|
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|
180 |
|
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/**
|
181 |
956
|
tao
|
* Construct a new document instance, writing the contents to the database.
|
182 |
|
|
* This method is called from DBSAXHandler because we need to know the
|
183 |
|
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* root element name for documents without a DOCTYPE before creating it.
|
184 |
|
|
*
|
185 |
2092
|
tao
|
* In this constructor, the docid is without rev. There is a string rev to
|
186 |
956
|
tao
|
* specify the revision user want to upadate. The revion is only need to be
|
187 |
|
|
* greater than current one. It is not need to be sequent number just after
|
188 |
|
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* current one. So it is only used in update action
|
189 |
|
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* @param conn the JDBC Connection to which all information is written
|
190 |
|
|
* @param rootnodeid - sequence id of the root node in the document
|
191 |
2092
|
tao
|
* @param docname - the name of DTD, i.e. the name immediately following
|
192 |
956
|
tao
|
* the DOCTYPE keyword ( should be the root element name ) or
|
193 |
|
|
* the root element name if no DOCTYPE declaration provided
|
194 |
2092
|
tao
|
* (Oracle's and IBM parsers are not aware if it is not the
|
195 |
956
|
tao
|
* root element name)
|
196 |
2092
|
tao
|
* @param doctype - Public ID of the DTD, i.e. the name immediately
|
197 |
956
|
tao
|
* following the PUBLIC keyword in DOCTYPE declaration or
|
198 |
|
|
* the docname if no Public ID provided or
|
199 |
|
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* null if no DOCTYPE declaration provided
|
200 |
|
|
* @param docid the docid to use for the UPDATE, no version number
|
201 |
|
|
* @param version, need to be update
|
202 |
|
|
* @param action the action to be performed (INSERT OR UPDATE)
|
203 |
|
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* @param user the user that owns the document
|
204 |
|
|
* @param pub flag for public "read" access on document
|
205 |
|
|
* @param serverCode the serverid from xml_replication on which this document
|
206 |
|
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* resides.
|
207 |
|
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*
|
208 |
|
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*/
|
209 |
2092
|
tao
|
public DocumentImpl(DBConnection conn, long rootNodeId, String docName,
|
210 |
|
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String docType, String docId, String newRevision,
|
211 |
956
|
tao
|
String action, String user,
|
212 |
|
|
String pub, String catalogId, int serverCode)
|
213 |
|
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throws SQLException, Exception
|
214 |
|
|
{
|
215 |
1217
|
tao
|
this.connection = conn;
|
216 |
956
|
tao
|
this.rootnodeid = rootNodeId;
|
217 |
|
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this.docname = docName;
|
218 |
|
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this.doctype = docType;
|
219 |
|
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this.docid = docId;
|
220 |
|
|
this.updatedVersion = newRevision;
|
221 |
|
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writeDocumentToDB(action, user, pub, catalogId, serverCode);
|
222 |
|
|
}
|
223 |
2092
|
tao
|
|
224 |
798
|
jones
|
/**
|
225 |
1026
|
tao
|
* This method will be call in handleUploadRequest in MetacatServlet class
|
226 |
|
|
*/
|
227 |
|
|
public static void registerDocument(
|
228 |
|
|
String docname, String doctype, String accnum, String user)
|
229 |
|
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throws SQLException, AccessionNumberException, Exception
|
230 |
|
|
{
|
231 |
2092
|
tao
|
|
232 |
1063
|
tao
|
try
|
233 |
|
|
{
|
234 |
1217
|
tao
|
// get server location for this doc
|
235 |
|
|
int serverLocation=getServerLocationNumber(accnum);
|
236 |
1063
|
tao
|
registerDocument(docname, doctype,accnum, user, serverLocation);
|
237 |
|
|
}
|
238 |
|
|
catch (Exception e)
|
239 |
|
|
{
|
240 |
|
|
throw e;
|
241 |
|
|
}
|
242 |
2092
|
tao
|
|
243 |
|
|
|
244 |
1026
|
tao
|
}
|
245 |
|
|
/**
|
246 |
798
|
jones
|
* Register a document that resides on the filesystem with the database.
|
247 |
|
|
* (ie, just an entry in xml_documents, nothing in xml_nodes).
|
248 |
|
|
* Creates a reference to a filesystem document (used for non-xml data files).
|
249 |
1055
|
tao
|
* This class only be called in MetaCatServerlet.
|
250 |
798
|
jones
|
* @param conn the JDBC Connection to which all information is written
|
251 |
2092
|
tao
|
* @param docname - the name of DTD, i.e. the name immediately following
|
252 |
798
|
jones
|
* the DOCTYPE keyword ( should be the root element name ) or
|
253 |
|
|
* the root element name if no DOCTYPE declaration provided
|
254 |
2092
|
tao
|
* (Oracle's and IBM parsers are not aware if it is not the
|
255 |
798
|
jones
|
* root element name)
|
256 |
2092
|
tao
|
* @param doctype - Public ID of the DTD, i.e. the name immediately
|
257 |
798
|
jones
|
* following the PUBLIC keyword in DOCTYPE declaration or
|
258 |
|
|
* the docname if no Public ID provided or
|
259 |
|
|
* null if no DOCTYPE declaration provided
|
260 |
2092
|
tao
|
* @param accnum the accession number to use for the INSERT OR UPDATE, which
|
261 |
|
|
* includes a revision number for this revision of the document
|
262 |
798
|
jones
|
* (e.g., knb.1.1)
|
263 |
|
|
* @param user the user that owns the document
|
264 |
|
|
* @param serverCode the serverid from xml_replication on which this document
|
265 |
|
|
* resides.
|
266 |
|
|
*/
|
267 |
|
|
public static void registerDocument(
|
268 |
2092
|
tao
|
String docname, String doctype, String accnum,
|
269 |
798
|
jones
|
String user, int serverCode)
|
270 |
|
|
throws SQLException, AccessionNumberException, Exception
|
271 |
|
|
{
|
272 |
1217
|
tao
|
DBConnection dbconn = null;
|
273 |
|
|
int serialNumber = -1;
|
274 |
|
|
PreparedStatement pstmt = null;
|
275 |
|
|
//MetaCatUtil util = new MetaCatUtil();
|
276 |
965
|
tao
|
AccessionNumber ac;
|
277 |
1755
|
tao
|
String action = null;
|
278 |
798
|
jones
|
try {
|
279 |
1217
|
tao
|
//dbconn = util.openDBConnection();
|
280 |
|
|
//check out DBConnection
|
281 |
|
|
dbconn=DBConnectionPool.
|
282 |
|
|
getDBConnection("DocumentImpl.registerDocument");
|
283 |
|
|
serialNumber=dbconn.getCheckOutSerialNumber();
|
284 |
965
|
tao
|
String docIdWithoutRev=MetaCatUtil.getDocIdFromString(accnum);
|
285 |
|
|
int userSpecifyRev=MetaCatUtil.getVersionFromString(accnum);
|
286 |
1217
|
tao
|
int revInDataBase=getLatestRevisionNumber(docIdWithoutRev);
|
287 |
965
|
tao
|
//revIndataBase=-1, there is no record in xml_documents table
|
288 |
|
|
//the data file is a new one, inert it into table
|
289 |
|
|
//user specified rev should be great than 0
|
290 |
|
|
if (revInDataBase==-1 && userSpecifyRev>0 )
|
291 |
|
|
{
|
292 |
1217
|
tao
|
ac = new AccessionNumber(accnum, "insert");
|
293 |
1755
|
tao
|
action = "insert";
|
294 |
965
|
tao
|
}
|
295 |
|
|
//rev is greater the last revsion number and revInDataBase isn't -1
|
296 |
|
|
// it is a updated data file
|
297 |
|
|
else if (userSpecifyRev>revInDataBase && revInDataBase>0)
|
298 |
|
|
{
|
299 |
2092
|
tao
|
|
300 |
|
|
//archive the old entry
|
301 |
1217
|
tao
|
archiveDocRevision(docIdWithoutRev, user);
|
302 |
965
|
tao
|
//delete the old entry in xml_documents
|
303 |
1755
|
tao
|
//deleteXMLDocuments(docIdWithoutRev);
|
304 |
1217
|
tao
|
ac = new AccessionNumber(accnum, "update");
|
305 |
1755
|
tao
|
action = "update";
|
306 |
965
|
tao
|
}
|
307 |
|
|
//other situation
|
308 |
|
|
else
|
309 |
|
|
{
|
310 |
2092
|
tao
|
|
311 |
965
|
tao
|
throw new Exception("Revision number couldn't be "
|
312 |
|
|
+userSpecifyRev);
|
313 |
|
|
}
|
314 |
798
|
jones
|
String docid = ac.getDocid();
|
315 |
|
|
String rev = ac.getRev();
|
316 |
1755
|
tao
|
/*SimpleDateFormat formatter = new SimpleDateFormat ("MM/dd/yy HH:mm:ss");
|
317 |
798
|
jones
|
Date localtime = new Date();
|
318 |
|
|
String dateString = formatter.format(localtime);
|
319 |
1755
|
tao
|
String sqlDateString=dbAdapter.toDate(dateString, "MM/DD/YY HH24:MI:SS");*/
|
320 |
|
|
String sqlDateString = dbAdapter.getDateTimeFunction();
|
321 |
2092
|
tao
|
|
322 |
798
|
jones
|
StringBuffer sql = new StringBuffer();
|
323 |
1755
|
tao
|
if (action != null && action.equals("insert"))
|
324 |
|
|
{
|
325 |
|
|
sql.append("insert into xml_documents (docid, docname, doctype, ");
|
326 |
|
|
sql.append("user_owner, user_updated, server_location, rev,date_created");
|
327 |
|
|
sql.append(", date_updated, public_access) values ('");
|
328 |
|
|
sql.append(docid).append("','");
|
329 |
|
|
sql.append(docname).append("','");
|
330 |
|
|
sql.append(doctype).append("','");
|
331 |
|
|
sql.append(user).append("','");
|
332 |
|
|
sql.append(user).append("','");
|
333 |
|
|
sql.append(serverCode).append("','");
|
334 |
|
|
sql.append(rev).append("',");
|
335 |
|
|
sql.append(sqlDateString).append(",");
|
336 |
|
|
sql.append(sqlDateString).append(",");
|
337 |
|
|
sql.append("'0')");
|
338 |
|
|
}
|
339 |
|
|
else if (action != null && action.equals("update"))
|
340 |
|
|
{
|
341 |
|
|
sql.append("update xml_documents set docname ='");
|
342 |
|
|
sql.append(docname).append("', ");
|
343 |
|
|
sql.append("user_updated='");
|
344 |
|
|
sql.append(user).append("', ");
|
345 |
|
|
sql.append("server_location='");
|
346 |
|
|
sql.append(serverCode).append("',");
|
347 |
|
|
sql.append("rev='");
|
348 |
|
|
sql.append(rev).append("',");
|
349 |
|
|
sql.append("date_updated=");
|
350 |
|
|
sql.append(sqlDateString);
|
351 |
|
|
sql.append(" where docid='");
|
352 |
|
|
sql.append(docid).append("'");
|
353 |
|
|
}
|
354 |
1217
|
tao
|
pstmt = dbconn.prepareStatement(sql.toString());
|
355 |
798
|
jones
|
pstmt.execute();
|
356 |
|
|
pstmt.close();
|
357 |
1217
|
tao
|
//dbconn.close();
|
358 |
2092
|
tao
|
}
|
359 |
|
|
finally
|
360 |
1063
|
tao
|
{
|
361 |
|
|
try
|
362 |
|
|
{
|
363 |
1217
|
tao
|
pstmt.close();
|
364 |
1063
|
tao
|
}
|
365 |
1217
|
tao
|
finally
|
366 |
1063
|
tao
|
{
|
367 |
1217
|
tao
|
DBConnectionPool.returnDBConnection(dbconn, serialNumber);
|
368 |
1063
|
tao
|
}
|
369 |
2092
|
tao
|
}
|
370 |
798
|
jones
|
}
|
371 |
2092
|
tao
|
|
372 |
1055
|
tao
|
/**
|
373 |
|
|
* Register a document that resides on the filesystem with the database.
|
374 |
|
|
* (ie, just an entry in xml_documents, nothing in xml_nodes).
|
375 |
|
|
* Creates a reference to a filesystem document (used for non-xml data files)
|
376 |
2092
|
tao
|
* This method will be called for register data file in xml_documents in
|
377 |
1055
|
tao
|
* Replication.
|
378 |
|
|
* This method is revised from registerDocument.
|
379 |
|
|
*
|
380 |
|
|
* @param conn the JDBC Connection to which all information is written
|
381 |
2092
|
tao
|
* @param docname - the name of DTD, i.e. the name immediately following
|
382 |
1055
|
tao
|
* the DOCTYPE keyword ( should be the root element name ) or
|
383 |
|
|
* the root element name if no DOCTYPE declaration provided
|
384 |
2092
|
tao
|
* (Oracle's and IBM parsers are not aware if it is not the
|
385 |
1055
|
tao
|
* root element name)
|
386 |
2092
|
tao
|
* @param doctype - Public ID of the DTD, i.e. the name immediately
|
387 |
1055
|
tao
|
* following the PUBLIC keyword in DOCTYPE declaration or
|
388 |
|
|
* the docname if no Public ID provided or
|
389 |
|
|
* null if no DOCTYPE declaration provided
|
390 |
2092
|
tao
|
* @param accnum the accession number to use for the INSERT OR UPDATE, which
|
391 |
|
|
* includes a revision number for this revision of the document
|
392 |
1055
|
tao
|
* (e.g., knb.1.1)
|
393 |
|
|
* @param user the user that owns the document
|
394 |
|
|
* @param serverCode the serverid from xml_replication on which this document
|
395 |
|
|
* resides.
|
396 |
|
|
*/
|
397 |
|
|
public static void registerDocumentInReplication(
|
398 |
2092
|
tao
|
String docname, String doctype, String accnum,
|
399 |
1055
|
tao
|
String user, int serverCode)
|
400 |
|
|
throws SQLException, AccessionNumberException, Exception
|
401 |
|
|
{
|
402 |
1217
|
tao
|
DBConnection dbconn = null;
|
403 |
|
|
int serialNumber = -1;
|
404 |
|
|
//MetaCatUtil util = new MetaCatUtil();
|
405 |
1055
|
tao
|
AccessionNumber ac;
|
406 |
1217
|
tao
|
PreparedStatement pstmt = null;
|
407 |
1755
|
tao
|
String action = null;
|
408 |
1055
|
tao
|
try {
|
409 |
1217
|
tao
|
//dbconn = util.openDBConnection();
|
410 |
|
|
dbconn=DBConnectionPool.
|
411 |
|
|
getDBConnection("DocumentImpl.registerDocumentInReplication");
|
412 |
|
|
serialNumber=dbconn.getCheckOutSerialNumber();
|
413 |
2045
|
tao
|
String docIdWithoutRev=MetaCatUtil.getDocIdFromAccessionNumber(accnum);
|
414 |
|
|
int userSpecifyRev=MetaCatUtil.getRevisionFromAccessionNumber(accnum);
|
415 |
1217
|
tao
|
int revInDataBase=getLatestRevisionNumber(docIdWithoutRev);
|
416 |
1055
|
tao
|
//revIndataBase=-1, there is no record in xml_documents table
|
417 |
|
|
//the data file is a new one, inert it into table
|
418 |
|
|
//user specified rev should be great than 0
|
419 |
2045
|
tao
|
if (revInDataBase==-1 && userSpecifyRev>=0 )
|
420 |
1055
|
tao
|
{
|
421 |
2092
|
tao
|
|
422 |
1217
|
tao
|
ac = new AccessionNumber(accnum, "insert");
|
423 |
1755
|
tao
|
action = "insert";
|
424 |
1055
|
tao
|
}
|
425 |
|
|
//rev is greater the last revsion number and revInDataBase isn't -1
|
426 |
|
|
// it is a updated data file
|
427 |
2039
|
tao
|
else if (userSpecifyRev>revInDataBase && revInDataBase>=0)
|
428 |
1055
|
tao
|
{
|
429 |
2092
|
tao
|
|
430 |
|
|
//archive the old entry
|
431 |
1217
|
tao
|
archiveDocRevision(docIdWithoutRev, user);
|
432 |
1055
|
tao
|
//delete the old entry in xml_documents
|
433 |
1755
|
tao
|
//deleteXMLDocuments(docIdWithoutRev);
|
434 |
1217
|
tao
|
ac = new AccessionNumber(accnum, "update");
|
435 |
1755
|
tao
|
action = "update";
|
436 |
1055
|
tao
|
}
|
437 |
1292
|
tao
|
// local server has newer version, then notify the remote server
|
438 |
|
|
else if ( userSpecifyRev < revInDataBase && revInDataBase > 0)
|
439 |
|
|
{
|
440 |
|
|
throw new Exception("Local server: "+MetaCatUtil.getOption("server")+
|
441 |
|
|
" has newer revision of doc: "+docIdWithoutRev+"."
|
442 |
|
|
+revInDataBase+". Please notify it.");
|
443 |
|
|
}
|
444 |
1055
|
tao
|
//other situation
|
445 |
|
|
else
|
446 |
|
|
{
|
447 |
2092
|
tao
|
|
448 |
1055
|
tao
|
throw new Exception("Revision number couldn't be "
|
449 |
|
|
+userSpecifyRev);
|
450 |
|
|
}
|
451 |
|
|
String docid = ac.getDocid();
|
452 |
|
|
String rev = ac.getRev();
|
453 |
1755
|
tao
|
/*SimpleDateFormat formatter = new SimpleDateFormat ("MM/dd/yy HH:mm:ss");
|
454 |
1055
|
tao
|
Date localtime = new Date();
|
455 |
|
|
String dateString = formatter.format(localtime);
|
456 |
1755
|
tao
|
String sqlDateString=dbAdapter.toDate(dateString, "MM/DD/YY HH24:MI:SS");*/
|
457 |
|
|
String sqlDateString = dbAdapter.getDateTimeFunction();
|
458 |
2092
|
tao
|
|
459 |
1055
|
tao
|
StringBuffer sql = new StringBuffer();
|
460 |
1755
|
tao
|
if (action != null && action.equals("insert"))
|
461 |
|
|
{
|
462 |
|
|
sql.append("insert into xml_documents (docid, docname, doctype, ");
|
463 |
|
|
sql.append("user_owner, user_updated, server_location, rev,date_created");
|
464 |
|
|
sql.append(", date_updated, public_access) values ('");
|
465 |
|
|
sql.append(docid).append("','");
|
466 |
|
|
sql.append(docname).append("','");
|
467 |
|
|
sql.append(doctype).append("','");
|
468 |
|
|
sql.append(user).append("','");
|
469 |
|
|
sql.append(user).append("','");
|
470 |
|
|
sql.append(serverCode).append("','");
|
471 |
|
|
sql.append(rev).append("',");
|
472 |
|
|
sql.append(sqlDateString).append(",");
|
473 |
|
|
sql.append(sqlDateString).append(",");
|
474 |
|
|
sql.append("'0')");
|
475 |
|
|
}
|
476 |
|
|
else if (action != null && action.equals("update"))
|
477 |
|
|
{
|
478 |
|
|
sql.append("update xml_documents set docname ='");
|
479 |
|
|
sql.append(docname).append("', ");
|
480 |
|
|
sql.append("user_updated='");
|
481 |
|
|
sql.append(user).append("', ");
|
482 |
|
|
sql.append("server_location='");
|
483 |
|
|
sql.append(serverCode).append("',");
|
484 |
|
|
sql.append("rev='");
|
485 |
|
|
sql.append(rev).append("',");
|
486 |
|
|
sql.append("date_updated=");
|
487 |
|
|
sql.append(sqlDateString);
|
488 |
|
|
sql.append(" where docid='");
|
489 |
|
|
sql.append(docid).append("'");
|
490 |
|
|
}
|
491 |
1292
|
tao
|
// Set auto commit fasle
|
492 |
|
|
dbconn.setAutoCommit(false);
|
493 |
1217
|
tao
|
pstmt = dbconn.prepareStatement(sql.toString());
|
494 |
2092
|
tao
|
|
495 |
1055
|
tao
|
pstmt.execute();
|
496 |
1292
|
tao
|
// Commit the insert
|
497 |
|
|
dbconn.commit();
|
498 |
1055
|
tao
|
pstmt.close();
|
499 |
1217
|
tao
|
//dbconn.close();
|
500 |
2092
|
tao
|
}
|
501 |
|
|
finally
|
502 |
1063
|
tao
|
{
|
503 |
1292
|
tao
|
// Set DBConnection auto commit true
|
504 |
|
|
dbconn.setAutoCommit(true);
|
505 |
1217
|
tao
|
pstmt.close();
|
506 |
|
|
DBConnectionPool.returnDBConnection(dbconn, serialNumber);
|
507 |
2092
|
tao
|
}
|
508 |
1055
|
tao
|
}
|
509 |
2092
|
tao
|
|
510 |
1021
|
tao
|
/**
|
511 |
1029
|
tao
|
* This method will register a data file entry in xml_documents and save a
|
512 |
1292
|
tao
|
* data file input Stream into file system.. It is only used in replication
|
513 |
1029
|
tao
|
*
|
514 |
|
|
* @param input, the input stream which contain the file content.
|
515 |
|
|
* @param , the input stream which contain the file content
|
516 |
|
|
* @param docname - the name of DTD, for data file, it is a docid number.
|
517 |
|
|
* @param doctype - "BIN" for data file
|
518 |
2092
|
tao
|
* @param accnum the accession number to use for the INSERT OR UPDATE, which
|
519 |
|
|
* includes a revision number for this revision of the document
|
520 |
1029
|
tao
|
* (e.g., knb.1.1)
|
521 |
|
|
* @param user the user that owns the document
|
522 |
1292
|
tao
|
* @param docHomeServer, the home server of the docid
|
523 |
2092
|
tao
|
* @param notificationServer, the server to notify force replication info to
|
524 |
1292
|
tao
|
* local metacat
|
525 |
1029
|
tao
|
*/
|
526 |
2092
|
tao
|
public static void writeDataFileInReplication(InputStream input,
|
527 |
|
|
String filePath, String docname, String doctype, String accnum,
|
528 |
1292
|
tao
|
String user, String docHomeServer, String notificationServer)
|
529 |
1029
|
tao
|
throws SQLException, AccessionNumberException, Exception
|
530 |
|
|
{
|
531 |
1292
|
tao
|
int serverCode=-2;
|
532 |
2092
|
tao
|
|
533 |
|
|
|
534 |
1029
|
tao
|
if (filePath==null||filePath.equals(""))
|
535 |
|
|
{
|
536 |
2092
|
tao
|
throw new
|
537 |
1029
|
tao
|
Exception("Please specify the directory where file will be store");
|
538 |
|
|
}
|
539 |
|
|
if (accnum==null||accnum.equals(""))
|
540 |
|
|
{
|
541 |
|
|
throw new Exception("Please specify the stored file name");
|
542 |
|
|
}
|
543 |
2092
|
tao
|
|
544 |
|
|
|
545 |
|
|
|
546 |
|
|
// If server is not int the xml replication talbe, insert it into
|
547 |
1292
|
tao
|
// xml_replication table
|
548 |
|
|
//serverList.addToServerListIfItIsNot(docHomeServer);
|
549 |
|
|
insertServerIntoReplicationTable(docHomeServer);
|
550 |
2092
|
tao
|
|
551 |
1292
|
tao
|
// Get server code again
|
552 |
|
|
serverCode = getServerCode(docHomeServer);
|
553 |
2092
|
tao
|
|
554 |
|
|
|
555 |
1292
|
tao
|
//register data file into xml_documents table
|
556 |
|
|
registerDocumentInReplication(docname, doctype, accnum, user, serverCode);
|
557 |
|
|
//write inputstream into file system.
|
558 |
|
|
File dataDirectory = new File(filePath);
|
559 |
2092
|
tao
|
File newFile = new File(dataDirectory, accnum);
|
560 |
|
|
|
561 |
1292
|
tao
|
// create a buffered byte output stream
|
562 |
|
|
// that uses a default-sized output buffer
|
563 |
|
|
FileOutputStream fos = new FileOutputStream(newFile);
|
564 |
|
|
BufferedOutputStream outPut = new BufferedOutputStream(fos);
|
565 |
1029
|
tao
|
|
566 |
1292
|
tao
|
BufferedInputStream bis = null;
|
567 |
|
|
bis = new BufferedInputStream(input);
|
568 |
|
|
byte[] buf = new byte[4 * 1024]; // 4K buffer
|
569 |
|
|
int b = bis.read(buf);
|
570 |
2092
|
tao
|
|
571 |
|
|
while (b != -1)
|
572 |
1292
|
tao
|
{
|
573 |
1029
|
tao
|
outPut.write(buf, 0, b);
|
574 |
|
|
b = bis.read(buf);
|
575 |
1292
|
tao
|
}
|
576 |
|
|
bis.close();
|
577 |
2092
|
tao
|
outPut.close();
|
578 |
|
|
fos.close();
|
579 |
|
|
|
580 |
1292
|
tao
|
// Force replicate data file
|
581 |
|
|
ForceReplicationHandler forceReplication = new ForceReplicationHandler
|
582 |
|
|
(accnum, false, notificationServer);
|
583 |
2092
|
tao
|
|
584 |
1029
|
tao
|
}
|
585 |
798
|
jones
|
|
586 |
2092
|
tao
|
|
587 |
|
|
|
588 |
|
|
public static boolean getDataFileLockGrant(String accnum)
|
589 |
1026
|
tao
|
throws Exception
|
590 |
2092
|
tao
|
{
|
591 |
|
|
|
592 |
1063
|
tao
|
try
|
593 |
|
|
{
|
594 |
2092
|
tao
|
|
595 |
1217
|
tao
|
int serverLocation=getServerLocationNumber(accnum);
|
596 |
2092
|
tao
|
|
597 |
1063
|
tao
|
return getDataFileLockGrant(accnum,serverLocation);
|
598 |
|
|
}
|
599 |
|
|
catch (Exception e)
|
600 |
|
|
{
|
601 |
2092
|
tao
|
|
602 |
1063
|
tao
|
throw e;
|
603 |
|
|
}
|
604 |
1026
|
tao
|
}
|
605 |
2092
|
tao
|
|
606 |
393
|
jones
|
/**
|
607 |
1026
|
tao
|
* The method will check if metacat can get data file lock grant
|
608 |
|
|
* If server code is 1, it get.
|
609 |
|
|
* If server code is not 1 but call replication getlock successfully,
|
610 |
|
|
* it get
|
611 |
|
|
* else, it didn't get
|
612 |
2092
|
tao
|
* @param accnum, the ID of the document
|
613 |
1026
|
tao
|
* @param action, the action to the document
|
614 |
|
|
* @param serverCode, the server location code
|
615 |
|
|
*/
|
616 |
|
|
public static boolean getDataFileLockGrant(String accnum, int serverCode)
|
617 |
2092
|
tao
|
throws Exception
|
618 |
1026
|
tao
|
{
|
619 |
|
|
boolean flag=true;
|
620 |
1217
|
tao
|
//MetaCatUtil util = new MetaCatUtil();
|
621 |
|
|
String docid = MetaCatUtil.getDocIdFromString(accnum);
|
622 |
|
|
int rev = MetaCatUtil.getVersionFromString(accnum);
|
623 |
2092
|
tao
|
|
624 |
1026
|
tao
|
if (serverCode == 1)
|
625 |
|
|
{
|
626 |
|
|
flag=true;
|
627 |
|
|
return flag;
|
628 |
|
|
}
|
629 |
2092
|
tao
|
|
630 |
1026
|
tao
|
//if((serverCode != 1 && action.equals("UPDATE")) )
|
631 |
|
|
if (serverCode != 1)
|
632 |
|
|
{ //if this document being written is not a resident of this server then
|
633 |
|
|
//we need to try to get a lock from it's resident server. If the
|
634 |
|
|
//resident server will not give a lock then we send the user a message
|
635 |
|
|
//saying that he/she needs to download a new copy of the file and
|
636 |
|
|
//merge the differences manually.
|
637 |
2092
|
tao
|
|
638 |
1292
|
tao
|
String server=MetacatReplication.getServerNameForServerCode(serverCode);
|
639 |
1026
|
tao
|
MetacatReplication.replLog("attempting to lock " + accnum);
|
640 |
1217
|
tao
|
URL u = new URL("https://" + server + "?server=" +
|
641 |
2092
|
tao
|
MetaCatUtil.getLocalReplicationServerName()+"&action=getlock&updaterev="
|
642 |
1026
|
tao
|
+rev + "&docid=" + docid);
|
643 |
|
|
//System.out.println("sending message: " + u.toString());
|
644 |
|
|
String serverResStr = MetacatReplication.getURLContent(u);
|
645 |
|
|
String openingtag =serverResStr.substring(0, serverResStr.indexOf(">")+1);
|
646 |
|
|
if(openingtag.equals("<lockgranted>"))
|
647 |
|
|
{
|
648 |
|
|
//the lock was granted go ahead with the insert
|
649 |
|
|
//System.out.println("In lockgranted");
|
650 |
|
|
MetacatReplication.replLog("lock granted for " + accnum + " from " +
|
651 |
|
|
server);
|
652 |
2092
|
tao
|
flag=true;
|
653 |
1026
|
tao
|
return flag;
|
654 |
|
|
}//if
|
655 |
|
|
|
656 |
|
|
else if(openingtag.equals("<filelocked>"))
|
657 |
|
|
{//the file is currently locked by another user
|
658 |
|
|
//notify our user to wait a few minutes, check out a new copy and try
|
659 |
|
|
//again.
|
660 |
|
|
//System.out.println("file locked");
|
661 |
|
|
MetacatReplication.replLog("lock denied for " + accnum + " on " +
|
662 |
|
|
server + " reason: file already locked");
|
663 |
|
|
throw new Exception("The file specified is already locked by another " +
|
664 |
|
|
"user. Please wait 30 seconds, checkout the " +
|
665 |
|
|
"newer document, merge your changes and try " +
|
666 |
|
|
"again.");
|
667 |
|
|
}
|
668 |
|
|
else if(openingtag.equals("<outdatedfile>"))
|
669 |
|
|
{//our file is outdated. notify our user to check out a new copy of the
|
670 |
|
|
//file and merge his version with the new version.
|
671 |
|
|
//System.out.println("outdated file");
|
672 |
|
|
MetacatReplication.replLog("lock denied for " + accnum + " on " +
|
673 |
|
|
server + " reason: local file outdated");
|
674 |
|
|
throw new Exception("The file you are trying to update is an outdated" +
|
675 |
|
|
" version. Please checkout the newest document, " +
|
676 |
|
|
"merge your changes and try again.");
|
677 |
|
|
}//else if
|
678 |
|
|
}//if
|
679 |
2092
|
tao
|
|
680 |
1026
|
tao
|
return flag;
|
681 |
2092
|
tao
|
|
682 |
1026
|
tao
|
}//getDataFileLockGrant
|
683 |
2092
|
tao
|
|
684 |
1026
|
tao
|
/**
|
685 |
393
|
jones
|
* get the document name
|
686 |
|
|
*/
|
687 |
|
|
public String getDocname() {
|
688 |
|
|
return docname;
|
689 |
|
|
}
|
690 |
|
|
|
691 |
|
|
/**
|
692 |
|
|
* get the document type (which is the PublicID)
|
693 |
|
|
*/
|
694 |
|
|
public String getDoctype() {
|
695 |
|
|
return doctype;
|
696 |
|
|
}
|
697 |
|
|
|
698 |
|
|
/**
|
699 |
|
|
* get the system identifier
|
700 |
|
|
*/
|
701 |
|
|
public String getSystemID() {
|
702 |
|
|
return system_id;
|
703 |
|
|
}
|
704 |
|
|
|
705 |
|
|
/**
|
706 |
|
|
* get the root node identifier
|
707 |
|
|
*/
|
708 |
|
|
public long getRootNodeID() {
|
709 |
|
|
return rootnodeid;
|
710 |
|
|
}
|
711 |
2092
|
tao
|
|
712 |
465
|
berkley
|
/**
|
713 |
|
|
* get the creation date
|
714 |
|
|
*/
|
715 |
|
|
public String getCreateDate() {
|
716 |
|
|
return createdate;
|
717 |
|
|
}
|
718 |
2092
|
tao
|
|
719 |
465
|
berkley
|
/**
|
720 |
|
|
* get the update date
|
721 |
|
|
*/
|
722 |
|
|
public String getUpdateDate() {
|
723 |
|
|
return updatedate;
|
724 |
|
|
}
|
725 |
393
|
jones
|
|
726 |
2092
|
tao
|
/**
|
727 |
396
|
jones
|
* Get the document identifier (docid)
|
728 |
|
|
*/
|
729 |
|
|
public String getDocID() {
|
730 |
|
|
return docid;
|
731 |
|
|
}
|
732 |
2092
|
tao
|
|
733 |
691
|
bojilova
|
// DOCTITLE attr cleared from the db
|
734 |
|
|
// /**
|
735 |
|
|
// *get the document title
|
736 |
|
|
// */
|
737 |
|
|
// public String getDocTitle() {
|
738 |
|
|
// return doctitle;
|
739 |
|
|
// }
|
740 |
2092
|
tao
|
|
741 |
561
|
berkley
|
public String getUserowner() {
|
742 |
|
|
return userowner;
|
743 |
|
|
}
|
744 |
2092
|
tao
|
|
745 |
561
|
berkley
|
public String getUserupdated() {
|
746 |
|
|
return userupdated;
|
747 |
|
|
}
|
748 |
2092
|
tao
|
|
749 |
561
|
berkley
|
public int getServerlocation() {
|
750 |
|
|
return serverlocation;
|
751 |
|
|
}
|
752 |
2092
|
tao
|
|
753 |
1059
|
tao
|
public String getDocHomeServer() {
|
754 |
|
|
return docHomeServer;
|
755 |
1055
|
tao
|
}
|
756 |
2092
|
tao
|
|
757 |
|
|
|
758 |
|
|
|
759 |
697
|
bojilova
|
public String getPublicaccess() {
|
760 |
561
|
berkley
|
return publicaccess;
|
761 |
|
|
}
|
762 |
2092
|
tao
|
|
763 |
575
|
berkley
|
public int getRev() {
|
764 |
|
|
return rev;
|
765 |
|
|
}
|
766 |
2092
|
tao
|
|
767 |
1441
|
tao
|
public String getValidateType()
|
768 |
|
|
{
|
769 |
|
|
return validateType;
|
770 |
|
|
}
|
771 |
2092
|
tao
|
|
772 |
1435
|
tao
|
/**
|
773 |
429
|
jones
|
* Print a string representation of the XML document
|
774 |
393
|
jones
|
*/
|
775 |
1480
|
tao
|
public String toString(String user, String[] groups, boolean withInlinedata)
|
776 |
393
|
jones
|
{
|
777 |
429
|
jones
|
StringWriter docwriter = new StringWriter();
|
778 |
2092
|
tao
|
try
|
779 |
1435
|
tao
|
{
|
780 |
1480
|
tao
|
this.toXml(docwriter, user, groups, withInlinedata);
|
781 |
2092
|
tao
|
}
|
782 |
|
|
catch (McdbException mcdbe)
|
783 |
1435
|
tao
|
{
|
784 |
800
|
jones
|
return null;
|
785 |
|
|
}
|
786 |
429
|
jones
|
String document = docwriter.toString();
|
787 |
|
|
return document;
|
788 |
|
|
}
|
789 |
2092
|
tao
|
|
790 |
1435
|
tao
|
/**
|
791 |
|
|
* Print a string representation of the XML document
|
792 |
|
|
*/
|
793 |
|
|
public String toString()
|
794 |
|
|
{
|
795 |
|
|
StringWriter docwriter = new StringWriter();
|
796 |
|
|
String userName = null;
|
797 |
|
|
String[] groupNames = null;
|
798 |
1480
|
tao
|
boolean withInlineData = false;
|
799 |
2092
|
tao
|
try
|
800 |
1435
|
tao
|
{
|
801 |
1480
|
tao
|
this.toXml(docwriter, userName, groupNames, withInlineData);
|
802 |
2092
|
tao
|
}
|
803 |
|
|
catch (McdbException mcdbe)
|
804 |
1435
|
tao
|
{
|
805 |
|
|
return null;
|
806 |
|
|
}
|
807 |
|
|
String document = docwriter.toString();
|
808 |
|
|
return document;
|
809 |
|
|
}
|
810 |
429
|
jones
|
|
811 |
|
|
/**
|
812 |
|
|
* Get a text representation of the XML document as a string
|
813 |
|
|
* This older algorithm uses a recursive tree of Objects to represent the
|
814 |
2092
|
tao
|
* nodes of the tree. Each object is passed the data for the document
|
815 |
429
|
jones
|
* and searches all of the document data to find its children nodes and
|
816 |
|
|
* recursively build. Thus, because each node reads the whole document,
|
817 |
|
|
* this algorithm is extremely slow for larger documents, and the time
|
818 |
|
|
* to completion is O(N^N) wrt the number of nodes. See toXml() for a
|
819 |
|
|
* better algorithm.
|
820 |
|
|
*/
|
821 |
800
|
jones
|
public String readUsingSlowAlgorithm() throws McdbException
|
822 |
429
|
jones
|
{
|
823 |
393
|
jones
|
StringBuffer doc = new StringBuffer();
|
824 |
|
|
|
825 |
800
|
jones
|
// First, check that we have the needed node data, and get it if not
|
826 |
|
|
if (nodeRecordList == null) {
|
827 |
|
|
nodeRecordList = getNodeRecordList(rootnodeid);
|
828 |
|
|
}
|
829 |
|
|
|
830 |
429
|
jones
|
// Create the elements from the downloaded data in the TreeSet
|
831 |
|
|
rootNode = new ElementNode(nodeRecordList, rootnodeid);
|
832 |
|
|
|
833 |
393
|
jones
|
// Append the resulting document to the StringBuffer and return it
|
834 |
|
|
doc.append("<?xml version=\"1.0\"?>\n");
|
835 |
2092
|
tao
|
|
836 |
393
|
jones
|
if (docname != null) {
|
837 |
|
|
if ((doctype != null) && (system_id != null)) {
|
838 |
2092
|
tao
|
doc.append("<!DOCTYPE " + docname + " PUBLIC \"" + doctype +
|
839 |
393
|
jones
|
"\" \"" + system_id + "\">\n");
|
840 |
|
|
} else {
|
841 |
|
|
doc.append("<!DOCTYPE " + docname + ">\n");
|
842 |
|
|
}
|
843 |
|
|
}
|
844 |
|
|
doc.append(rootNode.toString());
|
845 |
2092
|
tao
|
|
846 |
393
|
jones
|
return (doc.toString());
|
847 |
|
|
}
|
848 |
|
|
|
849 |
|
|
/**
|
850 |
429
|
jones
|
* Print a text representation of the XML document to a Writer
|
851 |
|
|
*
|
852 |
|
|
* @param pw the Writer to which we print the document
|
853 |
|
|
*/
|
854 |
2092
|
tao
|
public void toXml(Writer pw, String user, String[] groups, boolean withInLineData)
|
855 |
1432
|
tao
|
throws McdbException
|
856 |
429
|
jones
|
{
|
857 |
1458
|
tao
|
// flag for process eml2
|
858 |
|
|
boolean proccessEml2 = false;
|
859 |
2092
|
tao
|
boolean storedDTD = false;//flag to inidate publicid or system
|
860 |
1804
|
tao
|
// id stored in db or not
|
861 |
|
|
boolean firstElement = true;
|
862 |
|
|
String dbDocName = null;
|
863 |
|
|
String dbPublicID = null;
|
864 |
|
|
String dbSystemID = null;
|
865 |
2092
|
tao
|
|
866 |
2169
|
sgarg
|
if (doctype != null && doctype.equals(EML2_0_0NAMESPACE))
|
867 |
1458
|
tao
|
{
|
868 |
|
|
proccessEml2 = true;
|
869 |
|
|
}
|
870 |
|
|
// flag for process inline data
|
871 |
|
|
boolean prcocessInlineData = false;
|
872 |
2092
|
tao
|
|
873 |
1439
|
tao
|
TreeSet nodeRecordLists = null;
|
874 |
429
|
jones
|
PrintWriter out = null;
|
875 |
|
|
if (pw instanceof PrintWriter) {
|
876 |
|
|
out = (PrintWriter)pw;
|
877 |
|
|
} else {
|
878 |
|
|
out = new PrintWriter(pw);
|
879 |
|
|
}
|
880 |
|
|
|
881 |
|
|
MetaCatUtil util = new MetaCatUtil();
|
882 |
2092
|
tao
|
|
883 |
1432
|
tao
|
// Here add code to handle subtree access control
|
884 |
|
|
PermissionController control = new PermissionController(docid);
|
885 |
2092
|
tao
|
Hashtable unaccessableSubTree =control.hasUnaccessableSubTree(user, groups,
|
886 |
1432
|
tao
|
AccessControlInterface.READSTRING);
|
887 |
2092
|
tao
|
|
888 |
1432
|
tao
|
if (!unaccessableSubTree.isEmpty())
|
889 |
|
|
{
|
890 |
2092
|
tao
|
|
891 |
1439
|
tao
|
nodeRecordLists = getPartNodeRecordList(rootnodeid, unaccessableSubTree);
|
892 |
2092
|
tao
|
|
893 |
1432
|
tao
|
}
|
894 |
2092
|
tao
|
else
|
895 |
1432
|
tao
|
{
|
896 |
1439
|
tao
|
nodeRecordLists = getNodeRecordList(rootnodeid);
|
897 |
800
|
jones
|
}
|
898 |
|
|
|
899 |
429
|
jones
|
Stack openElements = new Stack();
|
900 |
|
|
boolean atRootElement = true;
|
901 |
|
|
boolean previousNodeWasElement = false;
|
902 |
|
|
|
903 |
|
|
// Step through all of the node records we were given
|
904 |
2092
|
tao
|
|
905 |
1439
|
tao
|
Iterator it = nodeRecordLists.iterator();
|
906 |
2092
|
tao
|
|
907 |
|
|
while (it.hasNext())
|
908 |
1439
|
tao
|
{
|
909 |
2092
|
tao
|
|
910 |
429
|
jones
|
NodeRecord currentNode = (NodeRecord)it.next();
|
911 |
1439
|
tao
|
util.debugMessage("[Got Node ID: " + currentNode.nodeid +
|
912 |
|
|
" (" + currentNode.parentnodeid +
|
913 |
2092
|
tao
|
", " + currentNode.nodeindex +
|
914 |
|
|
", " + currentNode.nodetype +
|
915 |
|
|
", " + currentNode.nodename +
|
916 |
1439
|
tao
|
", " + currentNode.nodedata + ")]", 50);
|
917 |
429
|
jones
|
// Print the end tag for the previous node if needed
|
918 |
|
|
//
|
919 |
|
|
// This is determined by inspecting the parent nodeid for the
|
920 |
|
|
// currentNode. If it is the same as the nodeid of the last element
|
921 |
|
|
// that was pushed onto the stack, then we are still in that previous
|
922 |
|
|
// parent element, and we do nothing. However, if it differs, then we
|
923 |
|
|
// have returned to a level above the previous parent, so we go into
|
924 |
|
|
// a loop and pop off nodes and print out their end tags until we get
|
925 |
|
|
// the node on the stack to match the currentNode parentnodeid
|
926 |
|
|
//
|
927 |
|
|
// So, this of course means that we rely on the list of elements
|
928 |
|
|
// having been sorted in a depth first traversal of the nodes, which
|
929 |
|
|
// is handled by the NodeComparator class used by the TreeSet
|
930 |
|
|
if (!atRootElement) {
|
931 |
|
|
NodeRecord currentElement = (NodeRecord)openElements.peek();
|
932 |
|
|
if ( currentNode.parentnodeid != currentElement.nodeid ) {
|
933 |
|
|
while ( currentNode.parentnodeid != currentElement.nodeid ) {
|
934 |
|
|
currentElement = (NodeRecord)openElements.pop();
|
935 |
1427
|
tao
|
util.debugMessage("\n POPPED: " + currentElement.nodename, 50);
|
936 |
451
|
bojilova
|
if (previousNodeWasElement) {
|
937 |
|
|
out.print(">");
|
938 |
|
|
previousNodeWasElement = false;
|
939 |
2092
|
tao
|
}
|
940 |
826
|
bojilova
|
if ( currentElement.nodeprefix != null ) {
|
941 |
2092
|
tao
|
out.print("</" + currentElement.nodeprefix + ":" +
|
942 |
826
|
bojilova
|
currentElement.nodename + ">" );
|
943 |
|
|
} else {
|
944 |
|
|
out.print("</" + currentElement.nodename + ">" );
|
945 |
|
|
}
|
946 |
429
|
jones
|
currentElement = (NodeRecord)openElements.peek();
|
947 |
|
|
}
|
948 |
|
|
}
|
949 |
|
|
}
|
950 |
|
|
|
951 |
|
|
// Handle the DOCUMENT node
|
952 |
|
|
if (currentNode.nodetype.equals("DOCUMENT")) {
|
953 |
1804
|
tao
|
out.print("<?xml version=\"1.0\"?>");
|
954 |
429
|
jones
|
|
955 |
2092
|
tao
|
|
956 |
429
|
jones
|
// Handle the ELEMENT nodes
|
957 |
|
|
} else if (currentNode.nodetype.equals("ELEMENT")) {
|
958 |
|
|
if (atRootElement) {
|
959 |
|
|
atRootElement = false;
|
960 |
|
|
} else {
|
961 |
|
|
if (previousNodeWasElement) {
|
962 |
|
|
out.print(">");
|
963 |
|
|
}
|
964 |
|
|
}
|
965 |
2092
|
tao
|
|
966 |
1804
|
tao
|
// if publicid or system is not stored into db send it out by default
|
967 |
|
|
if ( !storedDTD & firstElement )
|
968 |
|
|
{
|
969 |
2092
|
tao
|
if (docname != null && validateType != null && validateType.equals(DTD))
|
970 |
1804
|
tao
|
{
|
971 |
2092
|
tao
|
if ((doctype != null) && (system_id != null))
|
972 |
1804
|
tao
|
{
|
973 |
2092
|
tao
|
|
974 |
|
|
out.print("<!DOCTYPE " + docname + " PUBLIC \"" + doctype +
|
975 |
1804
|
tao
|
"\" \"" + system_id + "\">");
|
976 |
2092
|
tao
|
}
|
977 |
|
|
else
|
978 |
1804
|
tao
|
{
|
979 |
2092
|
tao
|
|
980 |
1804
|
tao
|
out.print("<!DOCTYPE " + docname + ">");
|
981 |
|
|
}
|
982 |
|
|
}
|
983 |
|
|
}
|
984 |
|
|
firstElement = false;
|
985 |
429
|
jones
|
openElements.push(currentNode);
|
986 |
1427
|
tao
|
util.debugMessage("\n PUSHED: " + currentNode.nodename, 50);
|
987 |
429
|
jones
|
previousNodeWasElement = true;
|
988 |
826
|
bojilova
|
if ( currentNode.nodeprefix != null ) {
|
989 |
|
|
out.print("<" + currentNode.nodeprefix + ":" + currentNode.nodename);
|
990 |
|
|
} else {
|
991 |
|
|
out.print("<" + currentNode.nodename);
|
992 |
|
|
}
|
993 |
2092
|
tao
|
|
994 |
1458
|
tao
|
// if currentNode is inline and handle eml2, set flag proccess in
|
995 |
2092
|
tao
|
if (currentNode.nodename != null &&
|
996 |
2162
|
tao
|
currentNode.nodename.equals(Eml200SAXHandler.INLINE) && proccessEml2)
|
997 |
1458
|
tao
|
{
|
998 |
|
|
prcocessInlineData = true;
|
999 |
|
|
}
|
1000 |
429
|
jones
|
|
1001 |
|
|
// Handle the ATTRIBUTE nodes
|
1002 |
|
|
} else if (currentNode.nodetype.equals("ATTRIBUTE")) {
|
1003 |
826
|
bojilova
|
if ( currentNode.nodeprefix != null ) {
|
1004 |
|
|
out.print(" " + currentNode.nodeprefix + ":" + currentNode.nodename +
|
1005 |
|
|
"=\"" + currentNode.nodedata + "\"");
|
1006 |
|
|
} else {
|
1007 |
|
|
out.print(" " + currentNode.nodename + "=\"" +
|
1008 |
|
|
currentNode.nodedata + "\"");
|
1009 |
|
|
}
|
1010 |
821
|
bojilova
|
|
1011 |
|
|
// Handle the NAMESPACE nodes
|
1012 |
|
|
} else if (currentNode.nodetype.equals("NAMESPACE")) {
|
1013 |
|
|
out.print(" xmlns:" + currentNode.nodename + "=\""
|
1014 |
|
|
+ currentNode.nodedata + "\"");
|
1015 |
|
|
|
1016 |
|
|
// Handle the TEXT nodes
|
1017 |
429
|
jones
|
} else if (currentNode.nodetype.equals("TEXT")) {
|
1018 |
|
|
if (previousNodeWasElement) {
|
1019 |
|
|
out.print(">");
|
1020 |
|
|
}
|
1021 |
1480
|
tao
|
if (!prcocessInlineData || !withInLineData)
|
1022 |
1458
|
tao
|
{
|
1023 |
1480
|
tao
|
// if it is not inline data just out put data or it is line data
|
1024 |
|
|
// but user don't want it, just put local id in inlinedata
|
1025 |
1458
|
tao
|
out.print(currentNode.nodedata);
|
1026 |
|
|
}
|
1027 |
|
|
else
|
1028 |
|
|
{
|
1029 |
2092
|
tao
|
// if it is inline data and user want to see it, pull out from
|
1030 |
1480
|
tao
|
// file system and output it
|
1031 |
1458
|
tao
|
// for inline data, the data base only store the file name, so we
|
1032 |
|
|
// can combine the file name and inline data file path, to get it
|
1033 |
|
|
String fileName = currentNode.nodedata;
|
1034 |
2092
|
tao
|
Reader reader =
|
1035 |
2162
|
tao
|
Eml200SAXHandler.readInlineDataFromFileSystem(fileName);
|
1036 |
1766
|
tao
|
char [] characterArray = new char [4*1024];
|
1037 |
1763
|
tao
|
try
|
1038 |
|
|
{
|
1039 |
|
|
int length = reader.read(characterArray);
|
1040 |
|
|
while ( length != -1)
|
1041 |
|
|
{
|
1042 |
|
|
out.print(new String(characterArray, 0, length));
|
1043 |
|
|
out.flush();
|
1044 |
|
|
length = reader.read(characterArray);
|
1045 |
|
|
}
|
1046 |
|
|
reader.close();
|
1047 |
|
|
}
|
1048 |
|
|
catch (IOException e)
|
1049 |
|
|
{
|
1050 |
|
|
throw new McdbException(e.getMessage());
|
1051 |
|
|
}
|
1052 |
1458
|
tao
|
}
|
1053 |
2092
|
tao
|
|
1054 |
1458
|
tao
|
// reset proccess inline data false
|
1055 |
|
|
prcocessInlineData =false;
|
1056 |
429
|
jones
|
previousNodeWasElement = false;
|
1057 |
|
|
|
1058 |
|
|
// Handle the COMMENT nodes
|
1059 |
|
|
} else if (currentNode.nodetype.equals("COMMENT")) {
|
1060 |
|
|
if (previousNodeWasElement) {
|
1061 |
|
|
out.print(">");
|
1062 |
|
|
}
|
1063 |
|
|
out.print("<!--" + currentNode.nodedata + "-->");
|
1064 |
|
|
previousNodeWasElement = false;
|
1065 |
|
|
|
1066 |
|
|
// Handle the PI nodes
|
1067 |
|
|
} else if (currentNode.nodetype.equals("PI")) {
|
1068 |
|
|
if (previousNodeWasElement) {
|
1069 |
|
|
out.print(">");
|
1070 |
|
|
}
|
1071 |
|
|
out.print("<?" + currentNode.nodename + " " +
|
1072 |
|
|
currentNode.nodedata + "?>");
|
1073 |
|
|
previousNodeWasElement = false;
|
1074 |
2092
|
tao
|
// Handle the DTD nodes (docname, publicid, systemid)
|
1075 |
1804
|
tao
|
} else if (currentNode.nodetype.equals(DTD)) {
|
1076 |
|
|
storedDTD = true;
|
1077 |
|
|
if (currentNode.getNodeName().equals(DOCNAME))
|
1078 |
|
|
{
|
1079 |
|
|
dbDocName = currentNode.getNodeData();
|
1080 |
|
|
}
|
1081 |
|
|
if (currentNode.getNodeName().equals(PUBLICID))
|
1082 |
|
|
{
|
1083 |
|
|
dbPublicID = currentNode.getNodeData();
|
1084 |
|
|
}
|
1085 |
|
|
if (currentNode.getNodeName().equals(SYSTEMID))
|
1086 |
|
|
{
|
1087 |
|
|
dbSystemID = currentNode.getNodeData();
|
1088 |
|
|
// send out <!doctype .../>
|
1089 |
2092
|
tao
|
if (dbDocName != null )
|
1090 |
1804
|
tao
|
{
|
1091 |
2092
|
tao
|
if ((dbPublicID!= null) && (dbSystemID != null))
|
1092 |
1804
|
tao
|
{
|
1093 |
2092
|
tao
|
|
1094 |
|
|
out.print("<!DOCTYPE " + dbDocName+" PUBLIC \""+dbPublicID +
|
1095 |
1804
|
tao
|
"\" \"" + dbSystemID + "\">");
|
1096 |
2092
|
tao
|
}
|
1097 |
|
|
else
|
1098 |
1804
|
tao
|
{
|
1099 |
2092
|
tao
|
|
1100 |
1804
|
tao
|
out.print("<!DOCTYPE " + dbDocName + ">");
|
1101 |
|
|
}
|
1102 |
|
|
}
|
1103 |
2092
|
tao
|
|
1104 |
1804
|
tao
|
//reset these variable
|
1105 |
|
|
dbDocName = null;
|
1106 |
|
|
dbPublicID = null;
|
1107 |
|
|
dbSystemID = null;
|
1108 |
|
|
}
|
1109 |
2092
|
tao
|
|
1110 |
429
|
jones
|
// Handle any other node type (do nothing)
|
1111 |
|
|
} else {
|
1112 |
|
|
// Any other types of nodes are not handled.
|
1113 |
|
|
// Probably should throw an exception here to indicate this
|
1114 |
|
|
}
|
1115 |
|
|
out.flush();
|
1116 |
|
|
}
|
1117 |
2092
|
tao
|
|
1118 |
429
|
jones
|
// Print the final end tag for the root element
|
1119 |
686
|
berkley
|
while(!openElements.empty())
|
1120 |
|
|
{
|
1121 |
|
|
NodeRecord currentElement = (NodeRecord)openElements.pop();
|
1122 |
1427
|
tao
|
util.debugMessage("\n POPPED: " + currentElement.nodename, 50);
|
1123 |
826
|
bojilova
|
if ( currentElement.nodeprefix != null ) {
|
1124 |
2092
|
tao
|
out.print("</" + currentElement.nodeprefix + ":" +
|
1125 |
826
|
bojilova
|
currentElement.nodename + ">" );
|
1126 |
|
|
} else {
|
1127 |
|
|
out.print("</" + currentElement.nodename + ">" );
|
1128 |
|
|
}
|
1129 |
686
|
berkley
|
}
|
1130 |
429
|
jones
|
out.flush();
|
1131 |
|
|
}
|
1132 |
1515
|
tao
|
|
1133 |
2092
|
tao
|
|
1134 |
|
|
|
1135 |
622
|
berkley
|
private boolean isRevisionOnly(DocumentIdentifier docid) throws Exception
|
1136 |
|
|
{
|
1137 |
|
|
//System.out.println("inRevisionOnly");
|
1138 |
1217
|
tao
|
DBConnection dbconn = null;
|
1139 |
|
|
int serialNumber = -1;
|
1140 |
|
|
PreparedStatement pstmt =null;
|
1141 |
622
|
berkley
|
String rev = docid.getRev();
|
1142 |
|
|
String newid = docid.getIdentifier();
|
1143 |
1217
|
tao
|
try
|
1144 |
|
|
{
|
1145 |
|
|
dbconn=DBConnectionPool.
|
1146 |
|
|
getDBConnection("DocumentImpl.isRevisionOnly");
|
1147 |
|
|
serialNumber=dbconn.getCheckOutSerialNumber();
|
1148 |
|
|
pstmt = dbconn.prepareStatement("select rev from xml_documents " +
|
1149 |
622
|
berkley
|
"where docid like '" + newid + "'");
|
1150 |
1217
|
tao
|
pstmt.execute();
|
1151 |
|
|
ResultSet rs = pstmt.getResultSet();
|
1152 |
|
|
boolean tablehasrows = rs.next();
|
1153 |
|
|
if(rev.equals("newest") || rev.equals("all"))
|
1154 |
|
|
{
|
1155 |
622
|
berkley
|
return false;
|
1156 |
|
|
}
|
1157 |
2092
|
tao
|
|
1158 |
1217
|
tao
|
if(tablehasrows)
|
1159 |
|
|
{
|
1160 |
|
|
int r = rs.getInt(1);
|
1161 |
|
|
pstmt.close();
|
1162 |
|
|
if(new Integer(rev).intValue() == r)
|
1163 |
|
|
{ //the current revision in in xml_documents
|
1164 |
|
|
//System.out.println("returning false");
|
1165 |
|
|
return false;
|
1166 |
|
|
}
|
1167 |
|
|
else if(new Integer(rev).intValue() < r)
|
1168 |
|
|
{ //the current revision is in xml_revisions.
|
1169 |
|
|
//System.out.println("returning true");
|
1170 |
|
|
return true;
|
1171 |
|
|
}
|
1172 |
|
|
else if(new Integer(rev).intValue() > r)
|
1173 |
|
|
{ //error, rev cannot be greater than r
|
1174 |
|
|
throw new Exception("requested revision cannot be greater than " +
|
1175 |
622
|
berkley
|
"the latest revision number.");
|
1176 |
1217
|
tao
|
}
|
1177 |
622
|
berkley
|
}
|
1178 |
1292
|
tao
|
// Get miss docid and rev, throw to McdDocNotFoundException
|
1179 |
|
|
String missDocId = MetaCatUtil.getDocIdFromString(docid.toString());
|
1180 |
2092
|
tao
|
String missRevision =
|
1181 |
1292
|
tao
|
MetaCatUtil.getRevisionStringFromString(docid.toString());
|
1182 |
2092
|
tao
|
throw new McdbDocNotFoundException("the requested docid '" +
|
1183 |
1292
|
tao
|
docid.toString() + "' does not exist", missDocId, missRevision);
|
1184 |
1217
|
tao
|
}//try
|
1185 |
|
|
finally
|
1186 |
|
|
{
|
1187 |
|
|
pstmt.close();
|
1188 |
|
|
DBConnectionPool.returnDBConnection(dbconn, serialNumber);
|
1189 |
|
|
}//finally
|
1190 |
622
|
berkley
|
}
|
1191 |
429
|
jones
|
|
1192 |
2092
|
tao
|
private void getDocumentInfo(String docid) throws McdbException,
|
1193 |
1292
|
tao
|
AccessionNumberException, Exception
|
1194 |
622
|
berkley
|
{
|
1195 |
|
|
getDocumentInfo(new DocumentIdentifier(docid));
|
1196 |
|
|
}
|
1197 |
2092
|
tao
|
|
1198 |
429
|
jones
|
/**
|
1199 |
393
|
jones
|
* Look up the document type information from the database
|
1200 |
|
|
*
|
1201 |
|
|
* @param docid the id of the document to look up
|
1202 |
|
|
*/
|
1203 |
1292
|
tao
|
private void getDocumentInfo(DocumentIdentifier docid) throws McdbException
|
1204 |
|
|
, Exception
|
1205 |
393
|
jones
|
{
|
1206 |
1217
|
tao
|
DBConnection dbconn = null;
|
1207 |
|
|
int serialNumber = -1;
|
1208 |
|
|
PreparedStatement pstmt = null;
|
1209 |
622
|
berkley
|
String table = "xml_documents";
|
1210 |
2092
|
tao
|
|
1211 |
622
|
berkley
|
try
|
1212 |
|
|
{
|
1213 |
|
|
if(isRevisionOnly(docid))
|
1214 |
|
|
{ //pull the document from xml_revisions instead of from xml_documents;
|
1215 |
|
|
table = "xml_revisions";
|
1216 |
|
|
}
|
1217 |
|
|
}
|
1218 |
1292
|
tao
|
// catch a McdbDocNotFoundException throw it
|
1219 |
|
|
catch (McdbDocNotFoundException notFound)
|
1220 |
622
|
berkley
|
{
|
1221 |
1292
|
tao
|
throw notFound;
|
1222 |
622
|
berkley
|
}
|
1223 |
1292
|
tao
|
catch(Exception e)
|
1224 |
622
|
berkley
|
{
|
1225 |
2092
|
tao
|
|
1226 |
|
|
MetaCatUtil.debugMessage("error in DocumentImpl.getDocumentInfo: " +
|
1227 |
1292
|
tao
|
e.getMessage(), 30);
|
1228 |
|
|
throw e;
|
1229 |
622
|
berkley
|
}
|
1230 |
1292
|
tao
|
|
1231 |
2092
|
tao
|
|
1232 |
|
|
|
1233 |
|
|
try
|
1234 |
1217
|
tao
|
{
|
1235 |
|
|
dbconn=DBConnectionPool.getDBConnection("DocumentImpl.getDocumentInfo");
|
1236 |
|
|
serialNumber=dbconn.getCheckOutSerialNumber();
|
1237 |
622
|
berkley
|
StringBuffer sql = new StringBuffer();
|
1238 |
691
|
bojilova
|
// DOCTITLE attr cleared from the db
|
1239 |
|
|
// sql.append("SELECT docname, doctype, rootnodeid, doctitle, ");
|
1240 |
|
|
sql.append("SELECT docname, doctype, rootnodeid, ");
|
1241 |
697
|
bojilova
|
sql.append("date_created, date_updated, user_owner, user_updated, ");
|
1242 |
|
|
sql.append("server_location, public_access, rev");
|
1243 |
|
|
sql.append(" FROM ").append(table);
|
1244 |
622
|
berkley
|
sql.append(" WHERE docid LIKE '").append(docid.getIdentifier());
|
1245 |
|
|
sql.append("' and rev like '").append(docid.getRev()).append("'");
|
1246 |
|
|
//System.out.println(sql.toString());
|
1247 |
393
|
jones
|
pstmt =
|
1248 |
1217
|
tao
|
dbconn.prepareStatement(sql.toString());
|
1249 |
393
|
jones
|
// Bind the values to the query
|
1250 |
622
|
berkley
|
//pstmt.setString(1, docid.getIdentifier());
|
1251 |
|
|
//pstmt.setString(2, docid.getRev());
|
1252 |
393
|
jones
|
|
1253 |
|
|
pstmt.execute();
|
1254 |
|
|
ResultSet rs = pstmt.getResultSet();
|
1255 |
|
|
boolean tableHasRows = rs.next();
|
1256 |
|
|
if (tableHasRows) {
|
1257 |
561
|
berkley
|
this.docname = rs.getString(1);
|
1258 |
|
|
this.doctype = rs.getString(2);
|
1259 |
|
|
this.rootnodeid = rs.getLong(3);
|
1260 |
691
|
bojilova
|
// DOCTITLE attr cleared from the db
|
1261 |
|
|
// this.doctitle = rs.getString(4);
|
1262 |
692
|
bojilova
|
this.createdate = rs.getString(4);
|
1263 |
|
|
this.updatedate = rs.getString(5);
|
1264 |
|
|
this.userowner = rs.getString(6);
|
1265 |
|
|
this.userupdated = rs.getString(7);
|
1266 |
|
|
this.serverlocation = rs.getInt(8);
|
1267 |
697
|
bojilova
|
this.publicaccess = rs.getString(9);
|
1268 |
|
|
this.rev = rs.getInt(10);
|
1269 |
2092
|
tao
|
}
|
1270 |
818
|
berkley
|
pstmt.close();
|
1271 |
2092
|
tao
|
|
1272 |
1059
|
tao
|
//get doc home server name
|
1273 |
2092
|
tao
|
|
1274 |
1217
|
tao
|
pstmt = dbconn.prepareStatement("select server " +
|
1275 |
1059
|
tao
|
"from xml_replication where serverid = ?");
|
1276 |
1217
|
tao
|
//because connection use twise here, so we need to increase one
|
1277 |
|
|
dbconn.increaseUsageCount(1);
|
1278 |
1059
|
tao
|
pstmt.setInt(1, serverlocation);
|
1279 |
|
|
pstmt.execute();
|
1280 |
|
|
rs = pstmt.getResultSet();
|
1281 |
|
|
tableHasRows = rs.next();
|
1282 |
|
|
if (tableHasRows)
|
1283 |
|
|
{
|
1284 |
2092
|
tao
|
|
1285 |
1059
|
tao
|
String server = rs.getString(1);
|
1286 |
|
|
//get homeserver name
|
1287 |
|
|
if(!server.equals("localhost"))
|
1288 |
|
|
{
|
1289 |
|
|
this.docHomeServer=server;
|
1290 |
|
|
}
|
1291 |
|
|
else
|
1292 |
|
|
{
|
1293 |
|
|
this.docHomeServer=MetaCatUtil.getLocalReplicationServerName();
|
1294 |
|
|
}
|
1295 |
|
|
MetaCatUtil.debugMessage("server: "+docHomeServer, 50);
|
1296 |
2092
|
tao
|
|
1297 |
1059
|
tao
|
}
|
1298 |
|
|
pstmt.close();
|
1299 |
393
|
jones
|
if (this.doctype != null) {
|
1300 |
|
|
pstmt =
|
1301 |
1441
|
tao
|
dbconn.prepareStatement("SELECT system_id, entry_type " +
|
1302 |
393
|
jones
|
"FROM xml_catalog " +
|
1303 |
769
|
bojilova
|
"WHERE public_id = ?");
|
1304 |
1217
|
tao
|
//should increase usage count again
|
1305 |
|
|
dbconn.increaseUsageCount(1);
|
1306 |
393
|
jones
|
// Bind the values to the query
|
1307 |
|
|
pstmt.setString(1, doctype);
|
1308 |
2092
|
tao
|
|
1309 |
393
|
jones
|
pstmt.execute();
|
1310 |
|
|
rs = pstmt.getResultSet();
|
1311 |
|
|
tableHasRows = rs.next();
|
1312 |
|
|
if (tableHasRows) {
|
1313 |
|
|
this.system_id = rs.getString(1);
|
1314 |
1441
|
tao
|
this.validateType = rs.getString(2);
|
1315 |
2092
|
tao
|
|
1316 |
|
|
}
|
1317 |
818
|
berkley
|
pstmt.close();
|
1318 |
393
|
jones
|
}
|
1319 |
|
|
} catch (SQLException e) {
|
1320 |
2092
|
tao
|
System.out.println("error in DocumentImpl.getDocumentInfo: " +
|
1321 |
675
|
berkley
|
e.getMessage());
|
1322 |
622
|
berkley
|
e.printStackTrace(System.out);
|
1323 |
675
|
berkley
|
throw new McdbException("Error accessing database connection in " +
|
1324 |
|
|
"DocumentImpl.getDocumentInfo: ", e);
|
1325 |
393
|
jones
|
}
|
1326 |
1217
|
tao
|
finally
|
1327 |
|
|
{
|
1328 |
|
|
try
|
1329 |
|
|
{
|
1330 |
|
|
pstmt.close();
|
1331 |
|
|
}
|
1332 |
|
|
catch (SQLException ee)
|
1333 |
|
|
{
|
1334 |
|
|
MetaCatUtil.debugMessage("error in DocumentImple.getDocumentInfo: "
|
1335 |
|
|
+ee.getMessage(), 30);
|
1336 |
|
|
}//catch
|
1337 |
|
|
finally
|
1338 |
|
|
{
|
1339 |
|
|
DBConnectionPool.returnDBConnection(dbconn, serialNumber);
|
1340 |
|
|
}
|
1341 |
|
|
}
|
1342 |
393
|
jones
|
|
1343 |
|
|
if (this.docname == null) {
|
1344 |
1292
|
tao
|
throw new McdbDocNotFoundException("Document not found: " + docid,
|
1345 |
|
|
docid.getIdentifier(), docid.getRev());
|
1346 |
393
|
jones
|
}
|
1347 |
|
|
}
|
1348 |
2092
|
tao
|
|
1349 |
1439
|
tao
|
/**
|
1350 |
|
|
* Look up the node data from the database, but some node would be shown
|
1351 |
|
|
* because of access control
|
1352 |
|
|
* @param rootnodeid the id of the root node of the node tree to look up
|
1353 |
|
|
* @param accessControl the hashtable has control info
|
1354 |
|
|
*/
|
1355 |
2092
|
tao
|
private TreeSet getPartNodeRecordList(long rootnodeid,
|
1356 |
|
|
Hashtable accessControl)
|
1357 |
1439
|
tao
|
throws McdbException
|
1358 |
|
|
{
|
1359 |
|
|
PreparedStatement pstmt = null;
|
1360 |
|
|
DBConnection dbconn = null;
|
1361 |
|
|
int serialNumber = -1;
|
1362 |
|
|
TreeSet nodeRecordList = new TreeSet(new NodeComparator());
|
1363 |
|
|
long nodeid = 0;
|
1364 |
|
|
long parentnodeid = 0;
|
1365 |
|
|
long nodeindex = 0;
|
1366 |
|
|
String nodetype = null;
|
1367 |
|
|
String nodename = null;
|
1368 |
|
|
String nodeprefix = null;
|
1369 |
|
|
String nodedata = null;
|
1370 |
|
|
String quotechar = dbAdapter.getStringDelimiter();
|
1371 |
|
|
String sql = "SELECT nodeid,parentnodeid,nodeindex, " +
|
1372 |
2092
|
tao
|
"nodetype,nodename,nodeprefix,nodedata " +
|
1373 |
1439
|
tao
|
"FROM xml_nodes WHERE rootnodeid = ?";
|
1374 |
2092
|
tao
|
|
1375 |
1439
|
tao
|
// go through the access control for some nodes
|
1376 |
|
|
Enumeration en = accessControl.elements();
|
1377 |
|
|
while (en.hasMoreElements())
|
1378 |
|
|
{
|
1379 |
|
|
SubTree tree = (SubTree)en.nextElement();
|
1380 |
|
|
long startId = tree.getStartNodeId();
|
1381 |
|
|
long endId = tree.getEndNodeId();
|
1382 |
|
|
sql = sql +" AND(nodeid < " + startId + " OR nodeid > " +endId +")";
|
1383 |
2092
|
tao
|
|
1384 |
1439
|
tao
|
}
|
1385 |
|
|
MetaCatUtil.debugMessage("The final query to select part node tree: " +
|
1386 |
|
|
sql, 25);
|
1387 |
393
|
jones
|
|
1388 |
2092
|
tao
|
try
|
1389 |
1439
|
tao
|
{
|
1390 |
|
|
dbconn=DBConnectionPool.
|
1391 |
|
|
getDBConnection("DocumentImpl.getPartNodeRecordList");
|
1392 |
|
|
serialNumber=dbconn.getCheckOutSerialNumber();
|
1393 |
|
|
pstmt = dbconn.prepareStatement(sql);
|
1394 |
|
|
|
1395 |
|
|
// Bind the values to the query
|
1396 |
|
|
pstmt.setLong(1, rootnodeid);
|
1397 |
|
|
pstmt.execute();
|
1398 |
|
|
ResultSet rs = pstmt.getResultSet();
|
1399 |
|
|
boolean tableHasRows = rs.next();
|
1400 |
2092
|
tao
|
while (tableHasRows)
|
1401 |
1439
|
tao
|
{
|
1402 |
|
|
nodeid = rs.getLong(1);
|
1403 |
|
|
parentnodeid = rs.getLong(2);
|
1404 |
|
|
nodeindex = rs.getLong(3);
|
1405 |
|
|
nodetype = rs.getString(4);
|
1406 |
|
|
nodename = rs.getString(5);
|
1407 |
|
|
nodeprefix = rs.getString(6);
|
1408 |
|
|
nodedata = rs.getString(7);
|
1409 |
|
|
nodedata = MetaCatUtil.normalize(nodedata);
|
1410 |
|
|
// add the data to the node record list hashtable
|
1411 |
|
|
NodeRecord currentRecord = new NodeRecord(nodeid,parentnodeid,nodeindex,
|
1412 |
|
|
nodetype, nodename, nodeprefix, nodedata);
|
1413 |
|
|
nodeRecordList.add(currentRecord);
|
1414 |
|
|
|
1415 |
|
|
// Advance to the next node
|
1416 |
|
|
tableHasRows = rs.next();
|
1417 |
2092
|
tao
|
}
|
1418 |
1439
|
tao
|
pstmt.close();
|
1419 |
|
|
|
1420 |
2092
|
tao
|
}
|
1421 |
|
|
catch (SQLException e)
|
1422 |
1439
|
tao
|
{
|
1423 |
|
|
throw new McdbException("Error in DocumentImpl.getPartNodeRecordList " +
|
1424 |
|
|
e.getMessage());
|
1425 |
|
|
}
|
1426 |
|
|
finally
|
1427 |
|
|
{
|
1428 |
|
|
try
|
1429 |
|
|
{
|
1430 |
|
|
pstmt.close();
|
1431 |
|
|
}
|
1432 |
|
|
catch (SQLException ee)
|
1433 |
|
|
{
|
1434 |
|
|
MetaCatUtil.debugMessage("error in DocumentImpl.getPartNodeRecordList: "
|
1435 |
|
|
+ee.getMessage(), 30);
|
1436 |
|
|
}
|
1437 |
|
|
finally
|
1438 |
|
|
{
|
1439 |
|
|
DBConnectionPool.returnDBConnection(dbconn, serialNumber);
|
1440 |
|
|
}
|
1441 |
|
|
}
|
1442 |
|
|
|
1443 |
2092
|
tao
|
|
1444 |
|
|
if (!nodeRecordList.isEmpty())
|
1445 |
1439
|
tao
|
{
|
1446 |
2092
|
tao
|
|
1447 |
1439
|
tao
|
return nodeRecordList;
|
1448 |
2092
|
tao
|
}
|
1449 |
|
|
else
|
1450 |
1439
|
tao
|
{
|
1451 |
2092
|
tao
|
|
1452 |
1439
|
tao
|
throw new McdbException("Error getting node data: " + docid);
|
1453 |
|
|
}
|
1454 |
|
|
}
|
1455 |
2092
|
tao
|
|
1456 |
393
|
jones
|
/**
|
1457 |
|
|
* Look up the node data from the database
|
1458 |
|
|
*
|
1459 |
396
|
jones
|
* @param rootnodeid the id of the root node of the node tree to look up
|
1460 |
393
|
jones
|
*/
|
1461 |
1217
|
tao
|
private TreeSet getNodeRecordList(long rootnodeid) throws McdbException
|
1462 |
393
|
jones
|
{
|
1463 |
1217
|
tao
|
PreparedStatement pstmt = null;
|
1464 |
|
|
DBConnection dbconn = null;
|
1465 |
|
|
int serialNumber = -1;
|
1466 |
393
|
jones
|
TreeSet nodeRecordList = new TreeSet(new NodeComparator());
|
1467 |
|
|
long nodeid = 0;
|
1468 |
|
|
long parentnodeid = 0;
|
1469 |
|
|
long nodeindex = 0;
|
1470 |
|
|
String nodetype = null;
|
1471 |
|
|
String nodename = null;
|
1472 |
826
|
bojilova
|
String nodeprefix = null;
|
1473 |
393
|
jones
|
String nodedata = null;
|
1474 |
899
|
berkley
|
String quotechar = dbAdapter.getStringDelimiter();
|
1475 |
393
|
jones
|
|
1476 |
|
|
try {
|
1477 |
1217
|
tao
|
dbconn=DBConnectionPool.
|
1478 |
|
|
getDBConnection("DocumentImpl.getNodeRecordList");
|
1479 |
|
|
serialNumber=dbconn.getCheckOutSerialNumber();
|
1480 |
393
|
jones
|
pstmt =
|
1481 |
1217
|
tao
|
dbconn.prepareStatement("SELECT nodeid,parentnodeid,nodeindex, " +
|
1482 |
2092
|
tao
|
"nodetype,nodename,nodeprefix,nodedata " +
|
1483 |
396
|
jones
|
"FROM xml_nodes WHERE rootnodeid = ?");
|
1484 |
393
|
jones
|
|
1485 |
|
|
// Bind the values to the query
|
1486 |
396
|
jones
|
pstmt.setLong(1, rootnodeid);
|
1487 |
393
|
jones
|
|
1488 |
|
|
pstmt.execute();
|
1489 |
|
|
ResultSet rs = pstmt.getResultSet();
|
1490 |
|
|
boolean tableHasRows = rs.next();
|
1491 |
|
|
while (tableHasRows) {
|
1492 |
|
|
nodeid = rs.getLong(1);
|
1493 |
|
|
parentnodeid = rs.getLong(2);
|
1494 |
|
|
nodeindex = rs.getLong(3);
|
1495 |
|
|
nodetype = rs.getString(4);
|
1496 |
|
|
nodename = rs.getString(5);
|
1497 |
826
|
bojilova
|
nodeprefix = rs.getString(6);
|
1498 |
|
|
nodedata = rs.getString(7);
|
1499 |
899
|
berkley
|
nodedata = MetaCatUtil.normalize(nodedata);
|
1500 |
393
|
jones
|
// add the data to the node record list hashtable
|
1501 |
826
|
bojilova
|
NodeRecord currentRecord = new NodeRecord(nodeid,parentnodeid,nodeindex,
|
1502 |
946
|
tao
|
nodetype, nodename, nodeprefix, nodedata);
|
1503 |
393
|
jones
|
nodeRecordList.add(currentRecord);
|
1504 |
|
|
|
1505 |
|
|
// Advance to the next node
|
1506 |
|
|
tableHasRows = rs.next();
|
1507 |
2092
|
tao
|
}
|
1508 |
393
|
jones
|
pstmt.close();
|
1509 |
|
|
|
1510 |
|
|
} catch (SQLException e) {
|
1511 |
826
|
bojilova
|
throw new McdbException("Error in DocumentImpl.getNodeRecordList " +
|
1512 |
|
|
e.getMessage());
|
1513 |
393
|
jones
|
}
|
1514 |
1217
|
tao
|
finally
|
1515 |
|
|
{
|
1516 |
|
|
try
|
1517 |
|
|
{
|
1518 |
|
|
pstmt.close();
|
1519 |
|
|
}
|
1520 |
|
|
catch (SQLException ee)
|
1521 |
|
|
{
|
1522 |
|
|
MetaCatUtil.debugMessage("error in DocumentImpl.getNodeRecordList: "
|
1523 |
|
|
+ee.getMessage(), 30);
|
1524 |
|
|
}
|
1525 |
|
|
finally
|
1526 |
|
|
{
|
1527 |
|
|
DBConnectionPool.returnDBConnection(dbconn, serialNumber);
|
1528 |
|
|
}
|
1529 |
|
|
}
|
1530 |
2092
|
tao
|
|
1531 |
1467
|
tao
|
return nodeRecordList;
|
1532 |
2092
|
tao
|
|
1533 |
393
|
jones
|
}
|
1534 |
2092
|
tao
|
|
1535 |
697
|
bojilova
|
// NOT USED ANY MORE
|
1536 |
2092
|
tao
|
// /** creates SQL code and inserts new document into DB connection
|
1537 |
697
|
bojilova
|
// default serverCode of 1*/
|
1538 |
|
|
// private void writeDocumentToDB(String action, String user)
|
1539 |
|
|
// throws SQLException, Exception
|
1540 |
|
|
// {
|
1541 |
|
|
// writeDocumentToDB(action, user, null, 1);
|
1542 |
|
|
// }
|
1543 |
393
|
jones
|
|
1544 |
459
|
bojilova
|
/** creates SQL code and inserts new document into DB connection */
|
1545 |
2092
|
tao
|
private void writeDocumentToDB(String action, String user, String pub,
|
1546 |
|
|
String catalogid, int serverCode)
|
1547 |
459
|
bojilova
|
throws SQLException, Exception {
|
1548 |
754
|
bojilova
|
String sysdate = dbAdapter.getDateTimeFunction();
|
1549 |
747
|
bojilova
|
|
1550 |
459
|
bojilova
|
try {
|
1551 |
|
|
PreparedStatement pstmt = null;
|
1552 |
|
|
|
1553 |
|
|
if (action.equals("INSERT")) {
|
1554 |
|
|
//AccessionNumber ac = new AccessionNumber();
|
1555 |
|
|
//this.docid = ac.generate(docid, "INSERT");
|
1556 |
2092
|
tao
|
|
1557 |
1217
|
tao
|
pstmt = connection.prepareStatement(
|
1558 |
697
|
bojilova
|
"INSERT INTO xml_documents " +
|
1559 |
2092
|
tao
|
"(docid, rootnodeid, docname, doctype, " +
|
1560 |
|
|
"user_owner, user_updated, date_created, date_updated, " +
|
1561 |
1072
|
tao
|
"public_access, catalog_id, server_location, rev) " +
|
1562 |
2092
|
tao
|
"VALUES (?, ?, ?, ?, ?, ?, " + sysdate + ", " + sysdate +
|
1563 |
1072
|
tao
|
", ?, ?, ?, ?)");
|
1564 |
1217
|
tao
|
// Increase dbconnection usage count
|
1565 |
|
|
connection.increaseUsageCount(1);
|
1566 |
2092
|
tao
|
|
1567 |
|
|
//note that the server_location is set to 1.
|
1568 |
549
|
berkley
|
//this means that "localhost" in the xml_replication table must
|
1569 |
|
|
//always be the first entry!!!!!
|
1570 |
2092
|
tao
|
|
1571 |
459
|
bojilova
|
// Bind the values to the query
|
1572 |
|
|
pstmt.setString(1, this.docid);
|
1573 |
|
|
pstmt.setLong(2, rootnodeid);
|
1574 |
|
|
pstmt.setString(3, docname);
|
1575 |
|
|
pstmt.setString(4, doctype);
|
1576 |
|
|
pstmt.setString(5, user);
|
1577 |
|
|
pstmt.setString(6, user);
|
1578 |
1069
|
tao
|
//public access is usefulless, so set it to null
|
1579 |
|
|
pstmt.setString(7, null);
|
1580 |
|
|
/*if ( pub == null ) {
|
1581 |
680
|
bojilova
|
pstmt.setString(7, null);
|
1582 |
697
|
bojilova
|
} else if ( pub.toUpperCase().equals("YES") || pub.equals("1") ) {
|
1583 |
680
|
bojilova
|
pstmt.setInt(7, 1);
|
1584 |
697
|
bojilova
|
} else if ( pub.toUpperCase().equals("NO") || pub.equals("0") ) {
|
1585 |
680
|
bojilova
|
pstmt.setInt(7, 0);
|
1586 |
1069
|
tao
|
}*/
|
1587 |
697
|
bojilova
|
pstmt.setString(8, catalogid);
|
1588 |
|
|
pstmt.setInt(9, serverCode);
|
1589 |
2092
|
tao
|
pstmt.setInt(10, Integer.parseInt(updatedVersion));
|
1590 |
459
|
bojilova
|
} else if (action.equals("UPDATE")) {
|
1591 |
|
|
|
1592 |
1072
|
tao
|
// Save the old document publicaccessentry in a backup table
|
1593 |
1217
|
tao
|
DocumentImpl.archiveDocRevision(connection, docid, user );
|
1594 |
2045
|
tao
|
MetaCatUtil.debugMessage("after archiveDoc", 40);
|
1595 |
1292
|
tao
|
DocumentImpl thisdoc = new DocumentImpl(docid, false);
|
1596 |
575
|
berkley
|
int thisrev = thisdoc.getRev();
|
1597 |
2045
|
tao
|
MetaCatUtil.debugMessage("this revsion is: "+thisrev, 40);
|
1598 |
956
|
tao
|
//if the updated vesion is not greater than current one,
|
1599 |
|
|
//throw it into a exception
|
1600 |
|
|
if (Integer.parseInt(updatedVersion)<=thisrev)
|
1601 |
|
|
{
|
1602 |
|
|
throw new Exception("Next revision number couldn't be less"
|
1603 |
|
|
+" than or equal "+ thisrev);
|
1604 |
|
|
}
|
1605 |
|
|
else
|
1606 |
|
|
{
|
1607 |
2092
|
tao
|
//set the user specified revision
|
1608 |
956
|
tao
|
thisrev=Integer.parseInt(updatedVersion);
|
1609 |
|
|
}
|
1610 |
2045
|
tao
|
MetaCatUtil.debugMessage("final revsion is: "+thisrev, 40);
|
1611 |
2092
|
tao
|
boolean useXMLIndex =
|
1612 |
2076
|
jones
|
(new Boolean(MetaCatUtil.getOption("usexmlindex"))).booleanValue();
|
1613 |
|
|
if (useXMLIndex) {
|
1614 |
|
|
MetaCatUtil.debugMessage("before delete", 40);
|
1615 |
|
|
// Delete index for the old version of docid
|
1616 |
|
|
// The new index is inserting on the next calls to DBSAXNode
|
1617 |
|
|
pstmt = connection.prepareStatement(
|
1618 |
|
|
"DELETE FROM xml_index WHERE docid='" + this.docid + "'");
|
1619 |
|
|
MetaCatUtil.debugMessage("after delete", 40);
|
1620 |
|
|
// Increase dbconnection usage count
|
1621 |
|
|
connection.increaseUsageCount(1);
|
1622 |
2092
|
tao
|
|
1623 |
2076
|
jones
|
pstmt.execute();
|
1624 |
2092
|
tao
|
pstmt.close();
|
1625 |
2076
|
jones
|
}
|
1626 |
2092
|
tao
|
|
1627 |
459
|
bojilova
|
// Update the new document to reflect the new node tree
|
1628 |
1217
|
tao
|
pstmt = connection.prepareStatement(
|
1629 |
459
|
bojilova
|
"UPDATE xml_documents " +
|
1630 |
|
|
"SET rootnodeid = ?, docname = ?, doctype = ?, " +
|
1631 |
747
|
bojilova
|
"user_updated = ?, date_updated = " + sysdate + ", " +
|
1632 |
697
|
bojilova
|
"server_location = ?, rev = ?, public_access = ?, catalog_id = ? " +
|
1633 |
769
|
bojilova
|
"WHERE docid = ?");
|
1634 |
1217
|
tao
|
// Increase dbconnection usage count
|
1635 |
|
|
connection.increaseUsageCount(1);
|
1636 |
459
|
bojilova
|
// Bind the values to the query
|
1637 |
|
|
pstmt.setLong(1, rootnodeid);
|
1638 |
|
|
pstmt.setString(2, docname);
|
1639 |
|
|
pstmt.setString(3, doctype);
|
1640 |
|
|
pstmt.setString(4, user);
|
1641 |
549
|
berkley
|
pstmt.setInt(5, serverCode);
|
1642 |
575
|
berkley
|
pstmt.setInt(6, thisrev);
|
1643 |
1069
|
tao
|
pstmt.setString(7, null);
|
1644 |
|
|
/*if ( pub == null ) {
|
1645 |
680
|
bojilova
|
pstmt.setString(7, null);
|
1646 |
697
|
bojilova
|
} else if ( pub.toUpperCase().equals("YES") || pub.equals("1") ) {
|
1647 |
680
|
bojilova
|
pstmt .setInt(7, 1);
|
1648 |
697
|
bojilova
|
} else if ( pub.toUpperCase().equals("NO") || pub.equals("0") ) {
|
1649 |
680
|
bojilova
|
pstmt.setInt(7, 0);
|
1650 |
1069
|
tao
|
}*/
|
1651 |
697
|
bojilova
|
pstmt.setString(8, catalogid);
|
1652 |
|
|
pstmt.setString(9, this.docid);
|
1653 |
575
|
berkley
|
|
1654 |
459
|
bojilova
|
} else {
|
1655 |
|
|
System.err.println("Action not supported: " + action);
|
1656 |
|
|
}
|
1657 |
|
|
|
1658 |
|
|
// Do the insertion
|
1659 |
|
|
pstmt.execute();
|
1660 |
2092
|
tao
|
|
1661 |
459
|
bojilova
|
pstmt.close();
|
1662 |
|
|
|
1663 |
|
|
} catch (SQLException sqle) {
|
1664 |
|
|
throw sqle;
|
1665 |
|
|
} catch (Exception e) {
|
1666 |
|
|
throw e;
|
1667 |
|
|
}
|
1668 |
|
|
}
|
1669 |
|
|
|
1670 |
|
|
/**
|
1671 |
407
|
jones
|
* Write an XML file to the database, given a filename
|
1672 |
393
|
jones
|
*
|
1673 |
408
|
jones
|
* @param conn the JDBC connection to the database
|
1674 |
407
|
jones
|
* @param filename the filename to be loaded into the database
|
1675 |
680
|
bojilova
|
* @param pub flag for public "read" access on document
|
1676 |
|
|
* @param dtdfilename the dtd to be uploaded on server's file system
|
1677 |
407
|
jones
|
* @param action the action to be performed (INSERT OR UPDATE)
|
1678 |
|
|
* @param docid the docid to use for the INSERT OR UPDATE
|
1679 |
680
|
bojilova
|
* @param user the user that owns the document
|
1680 |
802
|
bojilova
|
* @param groups the groups to which user belongs
|
1681 |
393
|
jones
|
*/
|
1682 |
1383
|
tao
|
/*public static String write(DBConnection conn,String filename,
|
1683 |
680
|
bojilova
|
String pub, String dtdfilename,
|
1684 |
598
|
bojilova
|
String action, String docid, String user,
|
1685 |
802
|
bojilova
|
String[] groups )
|
1686 |
457
|
bojilova
|
throws Exception {
|
1687 |
2092
|
tao
|
|
1688 |
598
|
bojilova
|
Reader dtd = null;
|
1689 |
|
|
if ( dtdfilename != null ) {
|
1690 |
|
|
dtd = new FileReader(new File(dtdfilename).toString());
|
1691 |
|
|
}
|
1692 |
555
|
bojilova
|
return write ( conn, new FileReader(new File(filename).toString()),
|
1693 |
802
|
bojilova
|
pub, dtd, action, docid, user, groups, false);
|
1694 |
1383
|
tao
|
}*/
|
1695 |
598
|
bojilova
|
|
1696 |
1217
|
tao
|
public static String write(DBConnection conn,Reader xml,String pub,Reader dtd,
|
1697 |
598
|
bojilova
|
String action, String docid, String user,
|
1698 |
2092
|
tao
|
String[] groups, String ruleBase,
|
1699 |
1383
|
tao
|
boolean needValidation)
|
1700 |
549
|
berkley
|
throws Exception {
|
1701 |
2092
|
tao
|
//this method will be called in handleUpdateOrInsert method
|
1702 |
1383
|
tao
|
//in MetacatServlet class and now is wrapper into documentImple
|
1703 |
1012
|
tao
|
// get server location for this doc
|
1704 |
1217
|
tao
|
int serverLocation=getServerLocationNumber(docid);
|
1705 |
1012
|
tao
|
return write(conn,xml,pub,dtd,action,docid,user,groups,serverLocation,false,
|
1706 |
1383
|
tao
|
ruleBase, needValidation);
|
1707 |
598
|
bojilova
|
}
|
1708 |
|
|
|
1709 |
2092
|
tao
|
|
1710 |
|
|
|
1711 |
407
|
jones
|
/**
|
1712 |
|
|
* Write an XML file to the database, given a Reader
|
1713 |
|
|
*
|
1714 |
408
|
jones
|
* @param conn the JDBC connection to the database
|
1715 |
407
|
jones
|
* @param xml the xml stream to be loaded into the database
|
1716 |
680
|
bojilova
|
* @param pub flag for public "read" access on xml document
|
1717 |
|
|
* @param dtd the dtd to be uploaded on server's file system
|
1718 |
734
|
bojilova
|
* @param action the action to be performed (INSERT or UPDATE)
|
1719 |
|
|
* @param accnum the docid + rev# to use on INSERT or UPDATE
|
1720 |
580
|
berkley
|
* @param user the user that owns the document
|
1721 |
802
|
bojilova
|
* @param groups the groups to which user belongs
|
1722 |
580
|
berkley
|
* @param serverCode the serverid from xml_replication on which this document
|
1723 |
|
|
* resides.
|
1724 |
|
|
* @param override flag to stop insert replication checking.
|
1725 |
|
|
* if override = true then a document not belonging to the local server
|
1726 |
|
|
* will not be checked upon update for a file lock.
|
1727 |
2092
|
tao
|
* if override = false then a document not from this server, upon
|
1728 |
580
|
berkley
|
* update will be locked and version checked.
|
1729 |
407
|
jones
|
*/
|
1730 |
559
|
berkley
|
|
1731 |
1217
|
tao
|
public static String write(DBConnection conn, Reader xml,String pub,
|
1732 |
|
|
Reader dtd, String action, String accnum, String user,
|
1733 |
|
|
String[] groups, int serverCode, boolean override,
|
1734 |
1383
|
tao
|
String ruleBase, boolean needValidation)
|
1735 |
598
|
bojilova
|
throws Exception
|
1736 |
573
|
berkley
|
{
|
1737 |
779
|
bojilova
|
// NEW - WHEN CLIENT ALWAYS PROVIDE ACCESSION NUMBER INCLUDING REV IN IT
|
1738 |
1217
|
tao
|
//MetaCatUtil util = new MetaCatUtil();
|
1739 |
|
|
MetaCatUtil.debugMessage("conn usage count before writting: "
|
1740 |
|
|
+conn.getUsageCount(), 50);
|
1741 |
|
|
AccessionNumber ac = new AccessionNumber(accnum, action);
|
1742 |
779
|
bojilova
|
String docid = ac.getDocid();
|
1743 |
|
|
String rev = ac.getRev();
|
1744 |
2092
|
tao
|
MetaCatUtil.debugMessage("action: " + action + " servercode: " +
|
1745 |
1055
|
tao
|
serverCode + " override: " + override, 10);
|
1746 |
2092
|
tao
|
|
1747 |
577
|
berkley
|
if((serverCode != 1 && action.equals("UPDATE")) && !override)
|
1748 |
559
|
berkley
|
{ //if this document being written is not a resident of this server then
|
1749 |
|
|
//we need to try to get a lock from it's resident server. If the
|
1750 |
|
|
//resident server will not give a lock then we send the user a message
|
1751 |
|
|
//saying that he/she needs to download a new copy of the file and
|
1752 |
|
|
//merge the differences manually.
|
1753 |
2092
|
tao
|
int istreamInt;
|
1754 |
561
|
berkley
|
char istreamChar;
|
1755 |
2092
|
tao
|
|
1756 |
1081
|
tao
|
// check for 'write' permission for 'user' to update this document
|
1757 |
2045
|
tao
|
if ( !hasWritePermission(user, groups, accnum) ) {
|
1758 |
2092
|
tao
|
throw new Exception("User " + user +
|
1759 |
1081
|
tao
|
" does not have permission to update XML Document #" + accnum);
|
1760 |
2092
|
tao
|
}
|
1761 |
|
|
|
1762 |
779
|
bojilova
|
DocumentIdentifier id = new DocumentIdentifier(accnum);
|
1763 |
|
|
String updaterev = id.getRev();
|
1764 |
1292
|
tao
|
String server=MetacatReplication.getServerNameForServerCode(serverCode);
|
1765 |
734
|
bojilova
|
MetacatReplication.replLog("attempting to lock " + accnum);
|
1766 |
1217
|
tao
|
URL u = new URL("https://" + server + "?server="+
|
1767 |
2092
|
tao
|
MetaCatUtil.getLocalReplicationServerName()+"&action=getlock&updaterev="
|
1768 |
1012
|
tao
|
+updaterev + "&docid=" + docid);
|
1769 |
|
|
//System.out.println("sending message: " + u.toString());
|
1770 |
569
|
berkley
|
String serverResStr = MetacatReplication.getURLContent(u);
|
1771 |
946
|
tao
|
String openingtag =serverResStr.substring(0, serverResStr.indexOf(">")+1);
|
1772 |
561
|
berkley
|
if(openingtag.equals("<lockgranted>"))
|
1773 |
|
|
{//the lock was granted go ahead with the insert
|
1774 |
1781
|
tao
|
XMLReader parser = null;
|
1775 |
2092
|
tao
|
try
|
1776 |
571
|
berkley
|
{
|
1777 |
1012
|
tao
|
//System.out.println("In lockgranted");
|
1778 |
734
|
bojilova
|
MetacatReplication.replLog("lock granted for " + accnum + " from " +
|
1779 |
584
|
berkley
|
server);
|
1780 |
1383
|
tao
|
/*XMLReader parser = initializeParser(conn, action, docid, updaterev,
|
1781 |
|
|
validate, user, groups, pub, serverCode, dtd);*/
|
1782 |
1781
|
tao
|
parser = initializeParser(conn, action, docid, updaterev,
|
1783 |
2092
|
tao
|
user, groups, pub, serverCode,
|
1784 |
|
|
dtd,ruleBase, needValidation);
|
1785 |
571
|
berkley
|
conn.setAutoCommit(false);
|
1786 |
2092
|
tao
|
parser.parse(new InputSource(xml));
|
1787 |
571
|
berkley
|
conn.commit();
|
1788 |
|
|
conn.setAutoCommit(true);
|
1789 |
2092
|
tao
|
}
|
1790 |
|
|
catch (Exception e)
|
1791 |
571
|
berkley
|
{
|
1792 |
|
|
conn.rollback();
|
1793 |
|
|
conn.setAutoCommit(true);
|
1794 |
1781
|
tao
|
//if it is a eml2 document, we need delete online data
|
1795 |
|
|
if ( parser != null)
|
1796 |
|
|
{
|
1797 |
|
|
ContentHandler handler = parser.getContentHandler();
|
1798 |
2162
|
tao
|
if (handler instanceof Eml200SAXHandler)
|
1799 |
1781
|
tao
|
{
|
1800 |
2162
|
tao
|
Eml200SAXHandler eml = (Eml200SAXHandler) handler;
|
1801 |
1781
|
tao
|
eml.deleteInlineFiles();
|
1802 |
|
|
}
|
1803 |
|
|
}
|
1804 |
571
|
berkley
|
throw e;
|
1805 |
|
|
}
|
1806 |
2092
|
tao
|
// run write into access db base one relation table and access object
|
1807 |
1591
|
tao
|
runRelationAndAccessHandler(accnum, user, groups, serverCode);
|
1808 |
2092
|
tao
|
|
1809 |
1292
|
tao
|
// Force replication the docid
|
1810 |
|
|
ForceReplicationHandler frh = new ForceReplicationHandler
|
1811 |
|
|
(accnum, true, null);
|
1812 |
|
|
return(accnum);
|
1813 |
2092
|
tao
|
|
1814 |
561
|
berkley
|
}
|
1815 |
734
|
bojilova
|
|
1816 |
561
|
berkley
|
else if(openingtag.equals("<filelocked>"))
|
1817 |
|
|
{//the file is currently locked by another user
|
1818 |
|
|
//notify our user to wait a few minutes, check out a new copy and try
|
1819 |
|
|
//again.
|
1820 |
584
|
berkley
|
//System.out.println("file locked");
|
1821 |
734
|
bojilova
|
MetacatReplication.replLog("lock denied for " + accnum + " on " +
|
1822 |
584
|
berkley
|
server + " reason: file already locked");
|
1823 |
571
|
berkley
|
throw new Exception("The file specified is already locked by another " +
|
1824 |
|
|
"user. Please wait 30 seconds, checkout the " +
|
1825 |
|
|
"newer document, merge your changes and try " +
|
1826 |
|
|
"again.");
|
1827 |
561
|
berkley
|
}
|
1828 |
|
|
else if(openingtag.equals("<outdatedfile>"))
|
1829 |
|
|
{//our file is outdated. notify our user to check out a new copy of the
|
1830 |
|
|
//file and merge his version with the new version.
|
1831 |
584
|
berkley
|
//System.out.println("outdated file");
|
1832 |
734
|
bojilova
|
MetacatReplication.replLog("lock denied for " + accnum + " on " +
|
1833 |
584
|
berkley
|
server + " reason: local file outdated");
|
1834 |
571
|
berkley
|
throw new Exception("The file you are trying to update is an outdated" +
|
1835 |
|
|
" version. Please checkout the newest document, " +
|
1836 |
|
|
"merge your changes and try again.");
|
1837 |
561
|
berkley
|
}
|
1838 |
559
|
berkley
|
}
|
1839 |
2092
|
tao
|
|
1840 |
425
|
bojilova
|
if ( action.equals("UPDATE") ) {
|
1841 |
441
|
bojilova
|
// check for 'write' permission for 'user' to update this document
|
1842 |
628
|
berkley
|
|
1843 |
2045
|
tao
|
if ( !hasWritePermission(user, groups, accnum) ) {
|
1844 |
2092
|
tao
|
throw new Exception("User " + user +
|
1845 |
734
|
bojilova
|
" does not have permission to update XML Document #" + accnum);
|
1846 |
2092
|
tao
|
}
|
1847 |
425
|
bojilova
|
}
|
1848 |
1781
|
tao
|
XMLReader parser = null;
|
1849 |
2092
|
tao
|
try
|
1850 |
|
|
{
|
1851 |
|
|
|
1852 |
|
|
parser = initializeParser(conn, action, docid, rev,
|
1853 |
|
|
user, groups, pub, serverCode,
|
1854 |
1383
|
tao
|
dtd, ruleBase, needValidation);
|
1855 |
2092
|
tao
|
|
1856 |
555
|
bojilova
|
conn.setAutoCommit(false);
|
1857 |
|
|
parser.parse(new InputSource(xml));
|
1858 |
|
|
conn.commit();
|
1859 |
|
|
conn.setAutoCommit(true);
|
1860 |
2092
|
tao
|
}
|
1861 |
|
|
catch (Exception e)
|
1862 |
571
|
berkley
|
{
|
1863 |
555
|
bojilova
|
conn.rollback();
|
1864 |
|
|
conn.setAutoCommit(true);
|
1865 |
1781
|
tao
|
//if it is a eml2 document, we need delete online data
|
1866 |
|
|
if ( parser != null)
|
1867 |
|
|
{
|
1868 |
|
|
ContentHandler handler = parser.getContentHandler();
|
1869 |
2162
|
tao
|
if (handler instanceof Eml200SAXHandler)
|
1870 |
1781
|
tao
|
{
|
1871 |
2162
|
tao
|
Eml200SAXHandler eml = (Eml200SAXHandler) handler;
|
1872 |
1781
|
tao
|
eml.deleteInlineFiles();
|
1873 |
|
|
}
|
1874 |
|
|
}
|
1875 |
555
|
bojilova
|
throw e;
|
1876 |
|
|
}
|
1877 |
2092
|
tao
|
|
1878 |
|
|
// run access db base on relation table and access object
|
1879 |
1591
|
tao
|
runRelationAndAccessHandler(accnum, user, groups, serverCode);
|
1880 |
2092
|
tao
|
|
1881 |
1292
|
tao
|
// Force replicate out the new document to each server in our server list.
|
1882 |
|
|
// Start the thread to replicate this new document out to the other servers
|
1883 |
|
|
// true mean it is xml document
|
1884 |
|
|
// null is because no metacat notify the force replication.
|
1885 |
|
|
ForceReplicationHandler frh = new ForceReplicationHandler
|
1886 |
|
|
(accnum, action, true, null);
|
1887 |
2092
|
tao
|
|
1888 |
|
|
|
1889 |
1217
|
tao
|
MetaCatUtil.debugMessage("Conn Usage count after writting: "
|
1890 |
2092
|
tao
|
+conn.getUsageCount(),50);
|
1891 |
779
|
bojilova
|
return(accnum);
|
1892 |
393
|
jones
|
}
|
1893 |
396
|
jones
|
|
1894 |
407
|
jones
|
/**
|
1895 |
1055
|
tao
|
* Write an XML file to the database during replication
|
1896 |
|
|
*
|
1897 |
|
|
* @param conn the JDBC connection to the database
|
1898 |
|
|
* @param xml the xml stream to be loaded into the database
|
1899 |
|
|
* @param pub flag for public "read" access on xml document
|
1900 |
|
|
* @param dtd the dtd to be uploaded on server's file system
|
1901 |
|
|
* @param action the action to be performed (INSERT or UPDATE)
|
1902 |
|
|
* @param accnum the docid + rev# to use on INSERT or UPDATE
|
1903 |
|
|
* @param user the user that owns the document
|
1904 |
|
|
* @param groups the groups to which user belongs
|
1905 |
|
|
* @param homeServer the name of server which the document origanlly create
|
1906 |
|
|
* @param validate, if the xml document is valid or not
|
1907 |
2092
|
tao
|
* @param notifyServer, the server which notify local server the force
|
1908 |
1292
|
tao
|
* replication command
|
1909 |
1055
|
tao
|
*/
|
1910 |
|
|
|
1911 |
2092
|
tao
|
public static String writeReplication(DBConnection conn, Reader xml,
|
1912 |
|
|
String pub, Reader dtd, String action,
|
1913 |
1383
|
tao
|
String accnum, String user,
|
1914 |
2092
|
tao
|
String[] groups,String homeServer,
|
1915 |
1383
|
tao
|
String notifyServer,
|
1916 |
|
|
String ruleBase, boolean needValidation)
|
1917 |
|
|
throws Exception
|
1918 |
1055
|
tao
|
{
|
1919 |
2045
|
tao
|
MetaCatUtil.debugMessage("user in replication"+ user, 30);
|
1920 |
1292
|
tao
|
// Docid without revision
|
1921 |
2045
|
tao
|
String docid=MetaCatUtil.getDocIdFromAccessionNumber(accnum);
|
1922 |
1292
|
tao
|
// Revision specified by user (int)
|
1923 |
2045
|
tao
|
int userSpecifyRev=MetaCatUtil.getRevisionFromAccessionNumber(accnum);
|
1924 |
|
|
MetaCatUtil.debugMessage("The user specifyRev: " + userSpecifyRev, 30);
|
1925 |
1292
|
tao
|
// Revision for this docid in current database
|
1926 |
|
|
int revInDataBase=getLatestRevisionNumber(docid);
|
1927 |
2045
|
tao
|
MetaCatUtil.debugMessage("The rev in data base: "+revInDataBase, 30);
|
1928 |
1292
|
tao
|
// String to store the revision
|
1929 |
|
|
String rev = null;
|
1930 |
2092
|
tao
|
|
1931 |
|
|
|
1932 |
1292
|
tao
|
//revIndataBase=-1, there is no record in xml_documents table
|
1933 |
|
|
//the document is a new one for local server, inert it into table
|
1934 |
|
|
//user specified rev should be great than 0
|
1935 |
2039
|
tao
|
if (revInDataBase==-1 && userSpecifyRev>=0 )
|
1936 |
1069
|
tao
|
{
|
1937 |
1292
|
tao
|
// rev equals user specified
|
1938 |
|
|
rev=(new Integer(userSpecifyRev)).toString();
|
1939 |
|
|
// action should be INSERT
|
1940 |
|
|
action = "INSERT";
|
1941 |
1069
|
tao
|
}
|
1942 |
1292
|
tao
|
//rev is greater the last revsion number and revInDataBase isn't -1
|
1943 |
|
|
// it is a updated file
|
1944 |
2045
|
tao
|
else if (userSpecifyRev>revInDataBase && revInDataBase>=0)
|
1945 |
1055
|
tao
|
{
|
1946 |
1292
|
tao
|
// rev equals user specified
|
1947 |
|
|
rev=(new Integer(userSpecifyRev)).toString();
|
1948 |
|
|
// action should be update
|
1949 |
|
|
action = "UPDATE";
|
1950 |
1055
|
tao
|
}
|
1951 |
1292
|
tao
|
// local server has newer version, then notify the remote server
|
1952 |
|
|
else if ( userSpecifyRev < revInDataBase && revInDataBase > 0)
|
1953 |
|
|
{
|
1954 |
|
|
throw new Exception("Local server: "+MetaCatUtil.getOption("server")+
|
1955 |
|
|
" has newer revision of doc: "+docid+"."+revInDataBase
|
1956 |
|
|
+". Please notify it.");
|
1957 |
|
|
}
|
1958 |
|
|
//other situation
|
1959 |
|
|
else
|
1960 |
|
|
{
|
1961 |
2092
|
tao
|
|
1962 |
1292
|
tao
|
throw new Exception("The docid"+docid+"'s revision number couldn't be "
|
1963 |
|
|
+userSpecifyRev);
|
1964 |
|
|
}
|
1965 |
|
|
// Variable to store homeserver code
|
1966 |
|
|
int serverCode=-2;
|
1967 |
2092
|
tao
|
|
1968 |
1292
|
tao
|
// If server is not int the xml replication talbe, insert it into
|
1969 |
|
|
// xml_replication table
|
1970 |
|
|
//serverList.addToServerListIfItIsNot(homeServer);
|
1971 |
|
|
insertServerIntoReplicationTable(homeServer);
|
1972 |
|
|
// Get server code again
|
1973 |
|
|
serverCode = getServerCode(homeServer);
|
1974 |
2092
|
tao
|
|
1975 |
|
|
|
1976 |
1292
|
tao
|
MetaCatUtil.debugMessage("Document "+docid+"."+rev+" "+action+ " into local"
|
1977 |
|
|
+" metacat with servercode: "+ serverCode, 10);
|
1978 |
2092
|
tao
|
|
1979 |
|
|
|
1980 |
2076
|
jones
|
// insert into xml_nodes table
|
1981 |
1781
|
tao
|
XMLReader parser = null;
|
1982 |
2092
|
tao
|
try
|
1983 |
|
|
{
|
1984 |
|
|
|
1985 |
1781
|
tao
|
parser = initializeParser(conn, action, docid, rev,
|
1986 |
1383
|
tao
|
user, groups, pub, serverCode, dtd,
|
1987 |
|
|
ruleBase, needValidation);
|
1988 |
1055
|
tao
|
conn.setAutoCommit(false);
|
1989 |
|
|
parser.parse(new InputSource(xml));
|
1990 |
|
|
conn.commit();
|
1991 |
|
|
conn.setAutoCommit(true);
|
1992 |
2092
|
tao
|
}
|
1993 |
|
|
catch (Exception e)
|
1994 |
1055
|
tao
|
{
|
1995 |
|
|
conn.rollback();
|
1996 |
|
|
conn.setAutoCommit(true);
|
1997 |
1781
|
tao
|
if ( parser != null)
|
1998 |
|
|
{
|
1999 |
|
|
ContentHandler handler = parser.getContentHandler();
|
2000 |
2162
|
tao
|
if (handler instanceof Eml200SAXHandler)
|
2001 |
1781
|
tao
|
{
|
2002 |
2162
|
tao
|
Eml200SAXHandler eml = (Eml200SAXHandler) handler;
|
2003 |
1781
|
tao
|
eml.deleteInlineFiles();
|
2004 |
|
|
}
|
2005 |
|
|
}
|
2006 |
1055
|
tao
|
throw e;
|
2007 |
|
|
}
|
2008 |
2092
|
tao
|
|
2009 |
1591
|
tao
|
// run write into access db base on relation table and access rule
|
2010 |
|
|
try
|
2011 |
2092
|
tao
|
{
|
2012 |
1591
|
tao
|
runRelationAndAccessHandler(accnum, user, groups, serverCode);
|
2013 |
|
|
}
|
2014 |
|
|
catch (Exception ee)
|
2015 |
|
|
{
|
2016 |
2092
|
tao
|
MetacatReplication.replErrorLog("Failed to " +
|
2017 |
|
|
"create access " +
|
2018 |
1591
|
tao
|
"rule for package: " + accnum +
|
2019 |
|
|
" because " +ee.getMessage());
|
2020 |
2092
|
tao
|
MetaCatUtil.debugMessage("Failed to " +
|
2021 |
|
|
"create access " +
|
2022 |
1591
|
tao
|
"rule for package: "+ accnum +
|
2023 |
|
|
" because " +ee.getMessage(), 30);
|
2024 |
|
|
}
|
2025 |
1292
|
tao
|
//Force replication to other server
|
2026 |
|
|
ForceReplicationHandler forceReplication = new ForceReplicationHandler
|
2027 |
|
|
(accnum, action, true, notifyServer);
|
2028 |
1055
|
tao
|
|
2029 |
2092
|
tao
|
|
2030 |
1055
|
tao
|
return(accnum);
|
2031 |
|
|
}
|
2032 |
2092
|
tao
|
|
2033 |
1575
|
tao
|
/* Running write record to xml_relation and xml_access*/
|
2034 |
2092
|
tao
|
private static void runRelationAndAccessHandler(String accnumber,
|
2035 |
|
|
String userName,
|
2036 |
|
|
String[]group, int servercode)
|
2037 |
1575
|
tao
|
throws Exception
|
2038 |
|
|
{
|
2039 |
|
|
DBConnection dbconn = null;
|
2040 |
|
|
int serialNumber = -1;
|
2041 |
|
|
PreparedStatement pstmt =null;
|
2042 |
|
|
String documenttype = getDocTypeFromDBForCurrentDocument(accnumber);
|
2043 |
|
|
try
|
2044 |
|
|
{
|
2045 |
|
|
String packagedoctype = MetaCatUtil.getOption("packagedoctype");
|
2046 |
|
|
Vector packagedoctypes = new Vector();
|
2047 |
|
|
packagedoctypes = MetaCatUtil.getOptionList(packagedoctype);
|
2048 |
|
|
String docIdWithoutRev = MetaCatUtil.getDocIdFromString(accnumber);
|
2049 |
|
|
if (documenttype != null && packagedoctypes.contains(documenttype) )
|
2050 |
|
|
{
|
2051 |
|
|
dbconn=DBConnectionPool.
|
2052 |
1591
|
tao
|
getDBConnection("DocumentImpl.runRelationAndAccessHandeler");
|
2053 |
1575
|
tao
|
serialNumber=dbconn.getCheckOutSerialNumber();
|
2054 |
|
|
dbconn.setAutoCommit(false);
|
2055 |
|
|
// from the relations get the access file id for that package
|
2056 |
1591
|
tao
|
String aclid = RelationHandler.getAccessFileID(docIdWithoutRev);
|
2057 |
1575
|
tao
|
// if there are access file, write ACL for that package
|
2058 |
2092
|
tao
|
if ( aclid != null )
|
2059 |
1575
|
tao
|
{
|
2060 |
|
|
runAccessControlList(dbconn, aclid, userName, group, servercode);
|
2061 |
|
|
}
|
2062 |
|
|
dbconn.commit();
|
2063 |
|
|
dbconn.setAutoCommit(true);
|
2064 |
|
|
}
|
2065 |
|
|
// if it is an access file
|
2066 |
|
|
else if ( documenttype != null && MetaCatUtil.getOptionList(
|
2067 |
|
|
MetaCatUtil.getOption("accessdoctype")).contains(documenttype))
|
2068 |
|
|
{
|
2069 |
|
|
dbconn=DBConnectionPool.
|
2070 |
1591
|
tao
|
getDBConnection("DocumentImpl.runRelationAndAccessHandeler");
|
2071 |
1575
|
tao
|
serialNumber=dbconn.getCheckOutSerialNumber();
|
2072 |
|
|
dbconn.setAutoCommit(false);
|
2073 |
|
|
// write ACL for the package
|
2074 |
2092
|
tao
|
runAccessControlList(dbconn, docIdWithoutRev,
|
2075 |
1575
|
tao
|
userName, group, servercode);
|
2076 |
|
|
dbconn.commit();
|
2077 |
|
|
dbconn.setAutoCommit(true);
|
2078 |
2092
|
tao
|
|
2079 |
1575
|
tao
|
}
|
2080 |
2092
|
tao
|
|
2081 |
|
|
}
|
2082 |
|
|
catch (Exception e)
|
2083 |
1575
|
tao
|
{
|
2084 |
|
|
if( dbconn != null)
|
2085 |
|
|
{
|
2086 |
|
|
dbconn.rollback();
|
2087 |
|
|
dbconn.setAutoCommit(true);
|
2088 |
|
|
}
|
2089 |
1591
|
tao
|
MetaCatUtil.debugMessage("Error in DocumentImple.runRelationAndAccessHandler " +
|
2090 |
1575
|
tao
|
e.getMessage(), 30);
|
2091 |
|
|
throw e;
|
2092 |
|
|
}
|
2093 |
|
|
finally
|
2094 |
|
|
{
|
2095 |
|
|
if (dbconn != null)
|
2096 |
|
|
{
|
2097 |
|
|
DBConnectionPool.returnDBConnection(dbconn, serialNumber);
|
2098 |
|
|
}
|
2099 |
|
|
}//
|
2100 |
|
|
}
|
2101 |
2092
|
tao
|
|
2102 |
1575
|
tao
|
// It runs in xmlIndex thread. It writes ACL for a package.
|
2103 |
2092
|
tao
|
private static void runAccessControlList (DBConnection conn, String aclid,
|
2104 |
1575
|
tao
|
String users, String[]group, int servercode)
|
2105 |
|
|
throws Exception
|
2106 |
|
|
{
|
2107 |
|
|
// read the access file from xml_nodes
|
2108 |
|
|
// parse the access file and store the access info into xml_access
|
2109 |
|
|
AccessControlList aclobj =
|
2110 |
|
|
new AccessControlList(conn, aclid, users, group, servercode);
|
2111 |
2092
|
tao
|
|
2112 |
1575
|
tao
|
}
|
2113 |
2092
|
tao
|
|
2114 |
1575
|
tao
|
/* Method get document type from db*/
|
2115 |
|
|
private static String getDocTypeFromDBForCurrentDocument(String accnumber)
|
2116 |
|
|
throws SQLException
|
2117 |
|
|
{
|
2118 |
|
|
String docoumentType = null;
|
2119 |
|
|
String docid = null;
|
2120 |
|
|
PreparedStatement pstate = null;
|
2121 |
|
|
ResultSet rs = null;
|
2122 |
|
|
String sql = "SELECT doctype FROM xml_documents where docid = ?";
|
2123 |
|
|
DBConnection dbConnection = null;
|
2124 |
|
|
int serialNumber = -1;
|
2125 |
|
|
try
|
2126 |
|
|
{
|
2127 |
|
|
//get rid of revision number
|
2128 |
|
|
docid = MetaCatUtil.getDocIdFromString(accnumber);
|
2129 |
|
|
dbConnection=DBConnectionPool.
|
2130 |
|
|
getDBConnection("DocumentImpl.getDocTypeFromDBForCurrentDoc");
|
2131 |
|
|
serialNumber=dbConnection.getCheckOutSerialNumber();
|
2132 |
|
|
pstate = dbConnection.prepareStatement(sql);
|
2133 |
|
|
//bind variable
|
2134 |
|
|
pstate.setString(1, docid);
|
2135 |
|
|
//excute query
|
2136 |
|
|
pstate.execute();
|
2137 |
|
|
//handle resultset
|
2138 |
|
|
rs = pstate.getResultSet();
|
2139 |
|
|
if (rs.next())
|
2140 |
|
|
{
|
2141 |
|
|
docoumentType = rs.getString(1);
|
2142 |
|
|
}
|
2143 |
|
|
rs.close();
|
2144 |
|
|
pstate.close();
|
2145 |
|
|
}//try
|
2146 |
|
|
catch (SQLException e)
|
2147 |
|
|
{
|
2148 |
|
|
MetaCatUtil.debugMessage("error in DocumentImpl."+
|
2149 |
|
|
"getDocTypeFromDBForCurrentDocument "+e.getMessage(), 30);
|
2150 |
|
|
throw e;
|
2151 |
|
|
}//catch
|
2152 |
|
|
finally
|
2153 |
|
|
{
|
2154 |
|
|
pstate.close();
|
2155 |
|
|
DBConnectionPool.returnDBConnection(dbConnection, serialNumber);
|
2156 |
|
|
}//
|
2157 |
|
|
MetaCatUtil.debugMessage("The current doctype from db is: "+
|
2158 |
|
|
docoumentType, 35);
|
2159 |
|
|
return docoumentType;
|
2160 |
|
|
}
|
2161 |
1055
|
tao
|
/**
|
2162 |
407
|
jones
|
* Delete an XML file from the database (actually, just make it a revision
|
2163 |
|
|
* in the xml_revisions table)
|
2164 |
|
|
*
|
2165 |
|
|
* @param docid the ID of the document to be deleted from the database
|
2166 |
|
|
*/
|
2167 |
1217
|
tao
|
public static void delete(String accnum,
|
2168 |
802
|
bojilova
|
String user, String[] groups )
|
2169 |
2092
|
tao
|
throws Exception
|
2170 |
734
|
bojilova
|
{
|
2171 |
779
|
bojilova
|
// OLD
|
2172 |
|
|
//DocumentIdentifier id = new DocumentIdentifier(accnum);
|
2173 |
|
|
//String docid = id.getIdentifier();
|
2174 |
|
|
//String rev = id.getRev();
|
2175 |
2092
|
tao
|
|
2176 |
779
|
bojilova
|
// OLD
|
2177 |
734
|
bojilova
|
// Determine if the docid,rev are OK for DELETE
|
2178 |
779
|
bojilova
|
//AccessionNumber ac = new AccessionNumber(conn);
|
2179 |
|
|
//docid = ac.generate(docid, rev, "DELETE");
|
2180 |
1217
|
tao
|
DBConnection conn = null;
|
2181 |
|
|
int serialNumber = -1;
|
2182 |
|
|
PreparedStatement pstmt =null;
|
2183 |
|
|
try
|
2184 |
|
|
{
|
2185 |
|
|
//check out DBConnection
|
2186 |
|
|
conn=DBConnectionPool.
|
2187 |
|
|
getDBConnection("DocumentImpl.delete");
|
2188 |
|
|
serialNumber=conn.getCheckOutSerialNumber();
|
2189 |
396
|
jones
|
|
2190 |
1217
|
tao
|
// NEW - WHEN CLIENT ALWAYS PROVIDE ACCESSION NUMBER INCLUDING REV IN IT
|
2191 |
|
|
AccessionNumber ac = new AccessionNumber(accnum, "DELETE");
|
2192 |
|
|
String docid = ac.getDocid();
|
2193 |
|
|
String rev = ac.getRev();
|
2194 |
2092
|
tao
|
|
2195 |
1621
|
tao
|
MetaCatUtil.debugMessage("Start deleting doc "+docid+ "...", 20);
|
2196 |
441
|
bojilova
|
// check for 'write' permission for 'user' to delete this document
|
2197 |
2045
|
tao
|
if ( !hasWritePermission(user, groups, accnum) ) {
|
2198 |
2092
|
tao
|
throw new Exception("User " + user +
|
2199 |
734
|
bojilova
|
" does not have permission to delete XML Document #" + accnum);
|
2200 |
1217
|
tao
|
}
|
2201 |
425
|
bojilova
|
|
2202 |
1217
|
tao
|
conn.setAutoCommit(false);
|
2203 |
|
|
// Copy the record to the xml_revisions table
|
2204 |
|
|
DocumentImpl.archiveDocRevision(conn, docid, user );
|
2205 |
396
|
jones
|
|
2206 |
1217
|
tao
|
// Now delete it from the xml_index table
|
2207 |
2092
|
tao
|
boolean useXMLIndex =
|
2208 |
2076
|
jones
|
(new Boolean(MetaCatUtil.getOption("usexmlindex"))).booleanValue();
|
2209 |
2092
|
tao
|
//if (useXMLIndex) {
|
2210 |
2076
|
jones
|
pstmt = conn.prepareStatement("DELETE FROM xml_index WHERE docid = ?");
|
2211 |
|
|
pstmt.setString(1,docid);
|
2212 |
|
|
pstmt.execute();
|
2213 |
|
|
pstmt.close();
|
2214 |
|
|
conn.increaseUsageCount(1);
|
2215 |
2092
|
tao
|
//}
|
2216 |
|
|
|
2217 |
1217
|
tao
|
//stmt.execute("DELETE FROM xml_access WHERE docid = '" + docid + "'");
|
2218 |
|
|
// Now delete it from xml_access table
|
2219 |
|
|
pstmt = conn.
|
2220 |
|
|
prepareStatement("DELETE FROM xml_access WHERE accessfileid = ?");
|
2221 |
|
|
pstmt.setString(1, docid);
|
2222 |
|
|
pstmt.execute();
|
2223 |
|
|
pstmt.close();
|
2224 |
|
|
conn.increaseUsageCount(1);
|
2225 |
2092
|
tao
|
|
2226 |
1217
|
tao
|
// Delete it from relation table
|
2227 |
|
|
pstmt = conn.
|
2228 |
|
|
prepareStatement("DELETE FROM xml_relation WHERE docid = ?");
|
2229 |
|
|
//increase usage count
|
2230 |
|
|
conn.increaseUsageCount(1);
|
2231 |
|
|
pstmt.setString(1, docid);
|
2232 |
|
|
pstmt.execute();
|
2233 |
|
|
pstmt.close();
|
2234 |
2092
|
tao
|
|
2235 |
1618
|
tao
|
// Delete it from xml_accesssubtree table
|
2236 |
|
|
pstmt = conn.
|
2237 |
|
|
prepareStatement("DELETE FROM xml_accesssubtree WHERE docid = ?");
|
2238 |
|
|
//increase usage count
|
2239 |
|
|
conn.increaseUsageCount(1);
|
2240 |
|
|
pstmt.setString(1, docid);
|
2241 |
|
|
pstmt.execute();
|
2242 |
|
|
pstmt.close();
|
2243 |
2092
|
tao
|
|
2244 |
1217
|
tao
|
// Delete it from xml_doucments table
|
2245 |
|
|
pstmt =conn.prepareStatement("DELETE FROM xml_documents WHERE docid = ?");
|
2246 |
|
|
pstmt.setString(1, docid);
|
2247 |
|
|
pstmt.execute();
|
2248 |
|
|
pstmt.close();
|
2249 |
|
|
//Usaga count increase 1
|
2250 |
|
|
conn.increaseUsageCount(1);
|
2251 |
2092
|
tao
|
|
2252 |
1217
|
tao
|
conn.commit();
|
2253 |
|
|
conn.setAutoCommit(true);
|
2254 |
|
|
}//try
|
2255 |
1621
|
tao
|
catch (Exception e)
|
2256 |
|
|
{
|
2257 |
2092
|
tao
|
MetaCatUtil.debugMessage("error in DocumentImpl.delete: " +
|
2258 |
1621
|
tao
|
e.getMessage(), 30);
|
2259 |
|
|
throw e;
|
2260 |
|
|
}
|
2261 |
1217
|
tao
|
finally
|
2262 |
|
|
{
|
2263 |
2092
|
tao
|
|
2264 |
1217
|
tao
|
try
|
2265 |
|
|
{
|
2266 |
|
|
// close preparedStatement
|
2267 |
|
|
pstmt.close();
|
2268 |
|
|
}//try
|
2269 |
|
|
finally
|
2270 |
|
|
{
|
2271 |
|
|
//check in DBonnection
|
2272 |
|
|
DBConnectionPool.returnDBConnection(conn, serialNumber);
|
2273 |
|
|
}//finally
|
2274 |
|
|
}//finally
|
2275 |
634
|
berkley
|
//IF this is a package document:
|
2276 |
|
|
//delete all of the relations that this document created.
|
2277 |
2092
|
tao
|
//if the deleted document is a package document its relations should
|
2278 |
634
|
berkley
|
//no longer be active if it has been deleted from the system.
|
2279 |
2092
|
tao
|
|
2280 |
407
|
jones
|
}
|
2281 |
638
|
bojilova
|
|
2282 |
2092
|
tao
|
/**
|
2283 |
|
|
* Check for "WRITE" permission on @docid for @user and/or @groups
|
2284 |
|
|
* from DB connection
|
2285 |
570
|
bojilova
|
*/
|
2286 |
1427
|
tao
|
private static boolean hasWritePermission (String user,
|
2287 |
2092
|
tao
|
String[] groups, String docid )
|
2288 |
958
|
tao
|
throws SQLException, Exception
|
2289 |
570
|
bojilova
|
{
|
2290 |
802
|
bojilova
|
// Check for WRITE permission on @docid for @user and/or @groups
|
2291 |
1427
|
tao
|
PermissionController controller = new PermissionController(docid);
|
2292 |
|
|
return controller.hasPermission(user,groups,
|
2293 |
|
|
AccessControlInterface.WRITESTRING);
|
2294 |
425
|
bojilova
|
}
|
2295 |
|
|
|
2296 |
2092
|
tao
|
/**
|
2297 |
946
|
tao
|
* Check for "READ" permission base on docid, user and group
|
2298 |
|
|
*@docid, the document
|
2299 |
|
|
*@user, user name
|
2300 |
|
|
*@group, user's group
|
2301 |
2092
|
tao
|
*
|
2302 |
946
|
tao
|
*/
|
2303 |
1217
|
tao
|
public static boolean hasReadPermission (String user,
|
2304 |
2092
|
tao
|
String[] groups, String docId )
|
2305 |
958
|
tao
|
throws SQLException, Exception
|
2306 |
946
|
tao
|
{
|
2307 |
|
|
// Check for READ permission on @docid for @user and/or @groups
|
2308 |
2092
|
tao
|
PermissionController controller =
|
2309 |
1427
|
tao
|
new PermissionController(docId);
|
2310 |
|
|
return controller.hasPermission(user,groups,
|
2311 |
|
|
AccessControlInterface.READSTRING);
|
2312 |
2092
|
tao
|
}
|
2313 |
946
|
tao
|
|
2314 |
2092
|
tao
|
|
2315 |
1383
|
tao
|
/**
|
2316 |
|
|
* Set up the parser handlers for writing the document to the database
|
2317 |
|
|
*/
|
2318 |
|
|
private static XMLReader initializeParser(DBConnection dbconn, String action,
|
2319 |
2092
|
tao
|
String docid, String rev,
|
2320 |
|
|
String user,
|
2321 |
|
|
String[] groups, String pub,
|
2322 |
1383
|
tao
|
int serverCode, Reader dtd,
|
2323 |
2092
|
tao
|
String ruleBase,
|
2324 |
|
|
boolean needValidation)
|
2325 |
|
|
throws Exception
|
2326 |
1383
|
tao
|
{
|
2327 |
|
|
XMLReader parser = null;
|
2328 |
2092
|
tao
|
try
|
2329 |
1383
|
tao
|
{
|
2330 |
1407
|
tao
|
// handler
|
2331 |
|
|
ContentHandler chandler;
|
2332 |
1383
|
tao
|
EntityResolver eresolver;
|
2333 |
2092
|
tao
|
DTDHandler dtdhandler;
|
2334 |
1383
|
tao
|
// Get an instance of the parser
|
2335 |
|
|
String parserName = MetaCatUtil.getOption("saxparser");
|
2336 |
|
|
parser = XMLReaderFactory.createXMLReader(parserName);
|
2337 |
2163
|
tao
|
if (ruleBase != null && ruleBase.equals(EML200))
|
2338 |
1383
|
tao
|
{
|
2339 |
2169
|
sgarg
|
MetaCatUtil.debugMessage("eml 2.0.0 parser", 20);
|
2340 |
2162
|
tao
|
chandler = new Eml200SAXHandler(dbconn, action,
|
2341 |
1407
|
tao
|
docid, rev, user, groups, pub, serverCode);
|
2342 |
|
|
parser.setContentHandler((ContentHandler)chandler);
|
2343 |
|
|
parser.setErrorHandler((ErrorHandler)chandler);
|
2344 |
|
|
parser.setProperty(DECLARATIONHANDLERPROPERTY, chandler);
|
2345 |
|
|
parser.setProperty(LEXICALPROPERTY, chandler);
|
2346 |
1383
|
tao
|
// turn on schema validation feature
|
2347 |
|
|
parser.setFeature(VALIDATIONFEATURE, true);
|
2348 |
|
|
parser.setFeature(NAMESPACEFEATURE, true);
|
2349 |
1431
|
tao
|
//parser.setFeature(NAMESPACEPREFIXESFEATURE, true);
|
2350 |
1383
|
tao
|
parser.setFeature(SCHEMAVALIDATIONFEATURE, true);
|
2351 |
1396
|
tao
|
// From DB to find the register external schema location
|
2352 |
|
|
String externalSchemaLocation = null;
|
2353 |
|
|
SchemaLocationResolver resolver = new SchemaLocationResolver();
|
2354 |
|
|
externalSchemaLocation = resolver.getNameSpaceAndLocationString();
|
2355 |
|
|
// Set external schemalocation.
|
2356 |
2092
|
tao
|
if (externalSchemaLocation != null &&
|
2357 |
1396
|
tao
|
!(externalSchemaLocation.trim()).equals(""))
|
2358 |
|
|
{
|
2359 |
1407
|
tao
|
parser.setProperty(EXTERNALSCHEMALOCATIONPROPERTY,
|
2360 |
1396
|
tao
|
externalSchemaLocation);
|
2361 |
|
|
}
|
2362 |
2169
|
sgarg
|
} else if (ruleBase != null && ruleBase.equals(EML210))
|
2363 |
|
|
{
|
2364 |
|
|
MetaCatUtil.debugMessage("eml 2.1.0 parser", 20);
|
2365 |
|
|
chandler = new Eml210SAXHandler(dbconn, action,
|
2366 |
|
|
docid, rev, user, groups, pub, serverCode);
|
2367 |
|
|
parser.setContentHandler((ContentHandler)chandler);
|
2368 |
|
|
parser.setErrorHandler((ErrorHandler)chandler);
|
2369 |
|
|
parser.setProperty(DECLARATIONHANDLERPROPERTY, chandler);
|
2370 |
|
|
parser.setProperty(LEXICALPROPERTY, chandler);
|
2371 |
|
|
// turn on schema validation feature
|
2372 |
|
|
parser.setFeature(VALIDATIONFEATURE, true);
|
2373 |
|
|
parser.setFeature(NAMESPACEFEATURE, true);
|
2374 |
|
|
//parser.setFeature(NAMESPACEPREFIXESFEATURE, true);
|
2375 |
|
|
parser.setFeature(SCHEMAVALIDATIONFEATURE, true);
|
2376 |
|
|
// From DB to find the register external schema location
|
2377 |
|
|
String externalSchemaLocation = null;
|
2378 |
|
|
SchemaLocationResolver resolver = new SchemaLocationResolver();
|
2379 |
|
|
externalSchemaLocation = resolver.getNameSpaceAndLocationString();
|
2380 |
|
|
// Set external schemalocation.
|
2381 |
|
|
if (externalSchemaLocation != null &&
|
2382 |
|
|
!(externalSchemaLocation.trim()).equals(""))
|
2383 |
|
|
{
|
2384 |
|
|
parser.setProperty(EXTERNALSCHEMALOCATIONPROPERTY,
|
2385 |
|
|
externalSchemaLocation);
|
2386 |
|
|
}
|
2387 |
1383
|
tao
|
}
|
2388 |
|
|
else
|
2389 |
|
|
{
|
2390 |
1407
|
tao
|
//create a DBSAXHandler object which has the revision specification
|
2391 |
2092
|
tao
|
chandler = new DBSAXHandler(dbconn, action,
|
2392 |
1407
|
tao
|
docid, rev, user, groups, pub, serverCode);
|
2393 |
|
|
parser.setContentHandler((ContentHandler)chandler);
|
2394 |
|
|
parser.setErrorHandler((ErrorHandler)chandler);
|
2395 |
|
|
parser.setProperty(DECLARATIONHANDLERPROPERTY, chandler);
|
2396 |
|
|
parser.setProperty(LEXICALPROPERTY, chandler);
|
2397 |
2092
|
tao
|
|
2398 |
1407
|
tao
|
if (ruleBase != null && ruleBase.equals(SCHEMA) && needValidation)
|
2399 |
|
|
{
|
2400 |
|
|
MetaCatUtil.debugMessage("General schema parser", 20);
|
2401 |
|
|
// turn on schema validation feature
|
2402 |
|
|
parser.setFeature(VALIDATIONFEATURE, true);
|
2403 |
|
|
parser.setFeature(NAMESPACEFEATURE, true);
|
2404 |
1431
|
tao
|
//parser.setFeature(NAMESPACEPREFIXESFEATURE, true);
|
2405 |
1407
|
tao
|
parser.setFeature(SCHEMAVALIDATIONFEATURE, true);
|
2406 |
|
|
// From DB to find the register external schema location
|
2407 |
|
|
String externalSchemaLocation = null;
|
2408 |
|
|
SchemaLocationResolver resolver = new SchemaLocationResolver();
|
2409 |
|
|
externalSchemaLocation = resolver.getNameSpaceAndLocationString();
|
2410 |
|
|
// Set external schemalocation.
|
2411 |
2092
|
tao
|
if (externalSchemaLocation != null &&
|
2412 |
1407
|
tao
|
!(externalSchemaLocation.trim()).equals(""))
|
2413 |
|
|
{
|
2414 |
|
|
parser.setProperty(EXTERNALSCHEMALOCATIONPROPERTY,
|
2415 |
|
|
externalSchemaLocation);
|
2416 |
|
|
}
|
2417 |
2092
|
tao
|
|
2418 |
1407
|
tao
|
}
|
2419 |
|
|
else if (ruleBase != null && ruleBase.equals(DTD) && needValidation)
|
2420 |
|
|
{
|
2421 |
|
|
MetaCatUtil.debugMessage("dtd parser", 20);
|
2422 |
|
|
// turn on dtd validaton feature
|
2423 |
|
|
parser.setFeature(VALIDATIONFEATURE, true);
|
2424 |
|
|
eresolver= new DBEntityResolver(dbconn, (DBSAXHandler)chandler, dtd);
|
2425 |
|
|
dtdhandler = new DBDTDHandler(dbconn);
|
2426 |
|
|
parser.setEntityResolver((EntityResolver)eresolver);
|
2427 |
|
|
parser.setDTDHandler((DTDHandler)dtdhandler);
|
2428 |
|
|
}
|
2429 |
|
|
else
|
2430 |
|
|
{
|
2431 |
|
|
MetaCatUtil.debugMessage("other parser", 20);
|
2432 |
|
|
// non validation
|
2433 |
|
|
parser.setFeature(VALIDATIONFEATURE, false);
|
2434 |
|
|
eresolver= new DBEntityResolver(dbconn, (DBSAXHandler)chandler, dtd);
|
2435 |
|
|
dtdhandler = new DBDTDHandler(dbconn);
|
2436 |
|
|
parser.setEntityResolver((EntityResolver)eresolver);
|
2437 |
|
|
parser.setDTDHandler((DTDHandler)dtdhandler);
|
2438 |
|
|
}
|
2439 |
|
|
}//else
|
2440 |
2092
|
tao
|
}
|
2441 |
|
|
catch (Exception e)
|
2442 |
1383
|
tao
|
{
|
2443 |
|
|
throw e;
|
2444 |
|
|
}
|
2445 |
|
|
return parser;
|
2446 |
|
|
}
|
2447 |
|
|
|
2448 |
2092
|
tao
|
|
2449 |
396
|
jones
|
/**
|
2450 |
407
|
jones
|
* Set up the parser handlers for writing the document to the database
|
2451 |
|
|
*/
|
2452 |
1383
|
tao
|
/*private static XMLReader initializeParser(DBConnection dbconn, String action,
|
2453 |
2092
|
tao
|
String docid, String rev, boolean validate,
|
2454 |
|
|
String user, String[] groups, String pub,
|
2455 |
|
|
int serverCode, Reader dtd)
|
2456 |
|
|
throws Exception
|
2457 |
598
|
bojilova
|
{
|
2458 |
407
|
jones
|
XMLReader parser = null;
|
2459 |
1217
|
tao
|
//DBConnection conn = null;
|
2460 |
|
|
//int serialNumber = -1;
|
2461 |
407
|
jones
|
//
|
2462 |
|
|
// Set up the SAX document handlers for parsing
|
2463 |
|
|
//
|
2464 |
|
|
try {
|
2465 |
1217
|
tao
|
//check out DBConnection
|
2466 |
2092
|
tao
|
|
2467 |
956
|
tao
|
//create a DBSAXHandler object which has the revision specification
|
2468 |
2092
|
tao
|
ContentHandler chandler = new DBSAXHandler(dbconn, action,
|
2469 |
1217
|
tao
|
docid, rev, user, groups, pub, serverCode);
|
2470 |
|
|
EntityResolver eresolver= new DBEntityResolver(dbconn,
|
2471 |
645
|
bojilova
|
(DBSAXHandler)chandler, dtd);
|
2472 |
1217
|
tao
|
DTDHandler dtdhandler = new DBDTDHandler(dbconn);
|
2473 |
407
|
jones
|
|
2474 |
|
|
// Get an instance of the parser
|
2475 |
802
|
bojilova
|
String parserName = MetaCatUtil.getOption("saxparser");
|
2476 |
407
|
jones
|
parser = XMLReaderFactory.createXMLReader(parserName);
|
2477 |
|
|
|
2478 |
660
|
bojilova
|
// Turn on validation
|
2479 |
695
|
bojilova
|
parser.setFeature("http://xml.org/sax/features/validation", validate);
|
2480 |
660
|
bojilova
|
// Turn off Including all external parameter entities
|
2481 |
|
|
// (the external DTD subset also)
|
2482 |
|
|
// Doesn't work well, probably the feature name is not correct
|
2483 |
|
|
// parser.setFeature(
|
2484 |
|
|
// "http://xml.org/sax/features/external-parameter-entities", false);
|
2485 |
2092
|
tao
|
|
2486 |
407
|
jones
|
// Set Handlers in the parser
|
2487 |
|
|
parser.setProperty("http://xml.org/sax/properties/declaration-handler",
|
2488 |
|
|
chandler);
|
2489 |
|
|
parser.setProperty("http://xml.org/sax/properties/lexical-handler",
|
2490 |
|
|
chandler);
|
2491 |
|
|
parser.setContentHandler((ContentHandler)chandler);
|
2492 |
598
|
bojilova
|
parser.setEntityResolver((EntityResolver)eresolver);
|
2493 |
407
|
jones
|
parser.setDTDHandler((DTDHandler)dtdhandler);
|
2494 |
|
|
parser.setErrorHandler((ErrorHandler)chandler);
|
2495 |
|
|
|
2496 |
|
|
} catch (Exception e) {
|
2497 |
457
|
bojilova
|
throw e;
|
2498 |
407
|
jones
|
}
|
2499 |
1217
|
tao
|
//finally
|
2500 |
|
|
//{
|
2501 |
|
|
//DBConnectionPool.returnDBConnection(conn, serialNumber);
|
2502 |
|
|
//}
|
2503 |
407
|
jones
|
|
2504 |
|
|
return parser;
|
2505 |
1383
|
tao
|
}*/
|
2506 |
407
|
jones
|
|
2507 |
1217
|
tao
|
/**
|
2508 |
2092
|
tao
|
* Save a document entry in the xml_revisions table
|
2509 |
1217
|
tao
|
* Connection use as a paramter is in order to rollback feature
|
2510 |
|
|
*/
|
2511 |
2092
|
tao
|
private static void archiveDocRevision(DBConnection dbconn, String docid,
|
2512 |
|
|
String user)
|
2513 |
1217
|
tao
|
{
|
2514 |
|
|
String sysdate = dbAdapter.getDateTimeFunction();
|
2515 |
|
|
//DBConnection conn = null;
|
2516 |
|
|
//int serialNumber = -1;
|
2517 |
|
|
PreparedStatement pstmt = null;
|
2518 |
2092
|
tao
|
|
2519 |
|
|
// create a record in xml_revisions table
|
2520 |
1217
|
tao
|
// for that document as selected from xml_documents
|
2521 |
2092
|
tao
|
|
2522 |
1217
|
tao
|
try
|
2523 |
|
|
{
|
2524 |
|
|
//check out DBConnection
|
2525 |
|
|
/*conn=DBConnectionPool.
|
2526 |
|
|
getDBConnection("DocumentImpl.archiveDocRevision");
|
2527 |
|
|
serialNumber=conn.getCheckOutSerialNumber();*/
|
2528 |
|
|
pstmt = dbconn.prepareStatement(
|
2529 |
|
|
"INSERT INTO xml_revisions " +
|
2530 |
|
|
"(docid, rootnodeid, docname, doctype, " +
|
2531 |
|
|
"user_owner, user_updated, date_created, date_updated, " +
|
2532 |
|
|
"server_location, rev, public_access, catalog_id) " +
|
2533 |
2092
|
tao
|
"SELECT ?, rootnodeid, docname, doctype, " +
|
2534 |
1217
|
tao
|
"user_owner, ?, " + sysdate + ", " + sysdate + ", "+
|
2535 |
|
|
"server_location, rev, public_access, catalog_id " +
|
2536 |
|
|
"FROM xml_documents " +
|
2537 |
|
|
"WHERE docid = ?");
|
2538 |
|
|
// Increase dbconnection usage count
|
2539 |
|
|
dbconn.increaseUsageCount(1);
|
2540 |
|
|
// Bind the values to the query and execute it
|
2541 |
|
|
pstmt.setString(1, docid);
|
2542 |
|
|
pstmt.setString(2, user);
|
2543 |
|
|
pstmt.setString(3, docid);
|
2544 |
|
|
pstmt.execute();
|
2545 |
|
|
pstmt.close();
|
2546 |
|
|
}//try
|
2547 |
|
|
catch (SQLException e)
|
2548 |
|
|
{
|
2549 |
|
|
MetaCatUtil.debugMessage("Error in DocumentImpl.archiveDocRevision : "+
|
2550 |
|
|
e.getMessage(), 30);
|
2551 |
|
|
}//catch
|
2552 |
|
|
finally
|
2553 |
|
|
{
|
2554 |
|
|
try
|
2555 |
|
|
{
|
2556 |
|
|
pstmt.close();
|
2557 |
|
|
}//try
|
2558 |
|
|
catch (SQLException ee)
|
2559 |
|
|
{
|
2560 |
|
|
MetaCatUtil.debugMessage("Error in DocumnetImpl.archiveDocRevision: "+
|
2561 |
|
|
ee.getMessage(), 50);
|
2562 |
|
|
}//catch
|
2563 |
|
|
//finally
|
2564 |
|
|
//{
|
2565 |
2092
|
tao
|
|
2566 |
1217
|
tao
|
//check in DBConnection
|
2567 |
|
|
//DBConnectionPool.returnDBConnection(conn, serialNumber);
|
2568 |
|
|
//}//finally
|
2569 |
|
|
}//finnally
|
2570 |
|
|
|
2571 |
2092
|
tao
|
|
2572 |
1217
|
tao
|
}//achiveDocRevision
|
2573 |
2092
|
tao
|
|
2574 |
459
|
bojilova
|
/** Save a document entry in the xml_revisions table */
|
2575 |
2092
|
tao
|
private static void archiveDocRevision(String docid, String user)
|
2576 |
1063
|
tao
|
{
|
2577 |
754
|
bojilova
|
String sysdate = dbAdapter.getDateTimeFunction();
|
2578 |
1217
|
tao
|
DBConnection conn = null;
|
2579 |
|
|
int serialNumber = -1;
|
2580 |
|
|
PreparedStatement pstmt = null;
|
2581 |
2092
|
tao
|
|
2582 |
|
|
// create a record in xml_revisions table
|
2583 |
459
|
bojilova
|
// for that document as selected from xml_documents
|
2584 |
2092
|
tao
|
|
2585 |
1063
|
tao
|
try
|
2586 |
|
|
{
|
2587 |
1217
|
tao
|
//check out DBConnection
|
2588 |
|
|
conn=DBConnectionPool.
|
2589 |
|
|
getDBConnection("DocumentImpl.archiveDocRevision");
|
2590 |
|
|
serialNumber=conn.getCheckOutSerialNumber();
|
2591 |
|
|
pstmt = conn.prepareStatement(
|
2592 |
459
|
bojilova
|
"INSERT INTO xml_revisions " +
|
2593 |
771
|
bojilova
|
"(docid, rootnodeid, docname, doctype, " +
|
2594 |
697
|
bojilova
|
"user_owner, user_updated, date_created, date_updated, " +
|
2595 |
|
|
"server_location, rev, public_access, catalog_id) " +
|
2596 |
2092
|
tao
|
"SELECT ?, rootnodeid, docname, doctype, " +
|
2597 |
747
|
bojilova
|
"user_owner, ?, " + sysdate + ", " + sysdate + ", "+
|
2598 |
|
|
"server_location, rev, public_access, catalog_id " +
|
2599 |
459
|
bojilova
|
"FROM xml_documents " +
|
2600 |
|
|
"WHERE docid = ?");
|
2601 |
1063
|
tao
|
// Bind the values to the query and execute it
|
2602 |
|
|
pstmt.setString(1, docid);
|
2603 |
|
|
pstmt.setString(2, user);
|
2604 |
|
|
pstmt.setString(3, docid);
|
2605 |
|
|
pstmt.execute();
|
2606 |
|
|
pstmt.close();
|
2607 |
1217
|
tao
|
}//try
|
2608 |
1063
|
tao
|
catch (SQLException e)
|
2609 |
|
|
{
|
2610 |
1217
|
tao
|
MetaCatUtil.debugMessage("Error in DocumentImpl.archiveDocRevision : "+
|
2611 |
|
|
e.getMessage(), 30);
|
2612 |
|
|
}//catch
|
2613 |
|
|
finally
|
2614 |
|
|
{
|
2615 |
|
|
try
|
2616 |
|
|
{
|
2617 |
|
|
pstmt.close();
|
2618 |
|
|
}//try
|
2619 |
|
|
catch (SQLException ee)
|
2620 |
|
|
{
|
2621 |
|
|
MetaCatUtil.debugMessage("Error in DocumnetImpl.archiveDocRevision: "+
|
2622 |
|
|
ee.getMessage(), 50);
|
2623 |
|
|
}//catch
|
2624 |
|
|
finally
|
2625 |
|
|
{
|
2626 |
|
|
//check in DBConnection
|
2627 |
|
|
DBConnectionPool.returnDBConnection(conn, serialNumber);
|
2628 |
|
|
}//finally
|
2629 |
|
|
}//finnally
|
2630 |
459
|
bojilova
|
|
2631 |
2092
|
tao
|
|
2632 |
1217
|
tao
|
}//achiveDocRevision
|
2633 |
2092
|
tao
|
|
2634 |
965
|
tao
|
/**
|
2635 |
|
|
* delete a entry in xml_table for given docid
|
2636 |
|
|
* @param docId, the id of the document need to be delete
|
2637 |
|
|
*/
|
2638 |
2092
|
tao
|
private static void deleteXMLDocuments(String docId)
|
2639 |
|
|
throws SQLException
|
2640 |
965
|
tao
|
{
|
2641 |
1217
|
tao
|
DBConnection conn = null;
|
2642 |
|
|
int serialNumber = -1;
|
2643 |
|
|
PreparedStatement pStmt = null;
|
2644 |
|
|
try
|
2645 |
|
|
{
|
2646 |
|
|
//check out DBConnection
|
2647 |
|
|
conn=DBConnectionPool.
|
2648 |
|
|
getDBConnection("DocumentImpl.deleteXMLDocuments");
|
2649 |
|
|
serialNumber=conn.getCheckOutSerialNumber();
|
2650 |
2092
|
tao
|
//delete a record
|
2651 |
|
|
pStmt =
|
2652 |
|
|
conn.prepareStatement("DELETE FROM xml_documents WHERE docid = '"
|
2653 |
965
|
tao
|
+ docId + "'");
|
2654 |
|
|
pStmt.execute();
|
2655 |
1217
|
tao
|
}//try
|
2656 |
|
|
finally
|
2657 |
|
|
{
|
2658 |
|
|
try
|
2659 |
|
|
{
|
2660 |
|
|
pStmt.close();
|
2661 |
|
|
}//try
|
2662 |
|
|
catch (SQLException e)
|
2663 |
|
|
{
|
2664 |
|
|
MetaCatUtil.debugMessage("error in DocumentImpl.deleteXMLDocuments: "+
|
2665 |
|
|
e.getMessage(), 50);
|
2666 |
|
|
}//catch
|
2667 |
|
|
finally
|
2668 |
|
|
{
|
2669 |
|
|
//return back DBconnection
|
2670 |
|
|
DBConnectionPool.returnDBConnection(conn, serialNumber);
|
2671 |
|
|
}//finally
|
2672 |
|
|
}//finally
|
2673 |
459
|
bojilova
|
|
2674 |
2092
|
tao
|
|
2675 |
965
|
tao
|
}//deleteXMLDocuments
|
2676 |
2092
|
tao
|
|
2677 |
407
|
jones
|
/**
|
2678 |
965
|
tao
|
* Get last revision number from database for a docid
|
2679 |
|
|
* If couldn't find an entry, -1 will return
|
2680 |
|
|
* The return value is integer because we want compare it to there new one
|
2681 |
|
|
* @param docid <sitecode>.<uniqueid> part of Accession Number
|
2682 |
|
|
*/
|
2683 |
1582
|
tao
|
public static int getLatestRevisionNumber(String docId)
|
2684 |
965
|
tao
|
throws SQLException
|
2685 |
|
|
{
|
2686 |
|
|
int rev = 1;
|
2687 |
1217
|
tao
|
PreparedStatement pStmt = null;
|
2688 |
|
|
DBConnection dbConn = null;
|
2689 |
|
|
int serialNumber = -1;
|
2690 |
1582
|
tao
|
// get rid of rev
|
2691 |
|
|
docId = MetaCatUtil.getDocIdFromString(docId);
|
2692 |
1217
|
tao
|
try
|
2693 |
|
|
{
|
2694 |
|
|
//check out DBConnection
|
2695 |
|
|
dbConn=DBConnectionPool.
|
2696 |
|
|
getDBConnection("DocumentImpl.getLatestRevisionNumber");
|
2697 |
|
|
serialNumber=dbConn.getCheckOutSerialNumber();
|
2698 |
2092
|
tao
|
|
2699 |
1217
|
tao
|
pStmt = dbConn.prepareStatement
|
2700 |
965
|
tao
|
("SELECT rev FROM xml_documents WHERE docid='" + docId + "'");
|
2701 |
1217
|
tao
|
pStmt.execute();
|
2702 |
965
|
tao
|
|
2703 |
1217
|
tao
|
ResultSet rs = pStmt.getResultSet();
|
2704 |
|
|
boolean hasRow = rs.next();
|
2705 |
|
|
if (hasRow)
|
2706 |
|
|
{
|
2707 |
|
|
rev = rs.getInt(1);
|
2708 |
|
|
pStmt.close();
|
2709 |
|
|
}
|
2710 |
|
|
else
|
2711 |
|
|
{
|
2712 |
|
|
rev=-1;
|
2713 |
|
|
pStmt.close();
|
2714 |
|
|
}
|
2715 |
|
|
}//try
|
2716 |
|
|
finally
|
2717 |
965
|
tao
|
{
|
2718 |
1217
|
tao
|
try
|
2719 |
|
|
{
|
2720 |
|
|
pStmt.close();
|
2721 |
|
|
}
|
2722 |
|
|
catch (Exception ee)
|
2723 |
|
|
{
|
2724 |
|
|
MetaCatUtil.debugMessage("Error in DocumentImpl."+
|
2725 |
|
|
"getLatestRevisionNumber: "+ee.getMessage(), 50);
|
2726 |
|
|
}
|
2727 |
|
|
finally
|
2728 |
|
|
{
|
2729 |
|
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
2730 |
|
|
}
|
2731 |
2092
|
tao
|
}//finally
|
2732 |
|
|
|
2733 |
965
|
tao
|
return rev;
|
2734 |
|
|
}//getLatestRevisionNumber
|
2735 |
2092
|
tao
|
|
2736 |
965
|
tao
|
/**
|
2737 |
1012
|
tao
|
* Get server location form database for a accNum
|
2738 |
2092
|
tao
|
*
|
2739 |
1012
|
tao
|
* @param accum <sitecode>.<uniqueid>.<rev>
|
2740 |
|
|
*/
|
2741 |
1217
|
tao
|
private static int getServerLocationNumber(String accNum)
|
2742 |
1012
|
tao
|
throws SQLException
|
2743 |
|
|
{
|
2744 |
|
|
//get rid of revNum part
|
2745 |
|
|
String docId=MetaCatUtil.getDocIdFromString(accNum);
|
2746 |
1217
|
tao
|
PreparedStatement pStmt = null;
|
2747 |
|
|
int serverLocation = 1;
|
2748 |
|
|
DBConnection conn = null;
|
2749 |
|
|
int serialNumber = -1;
|
2750 |
2092
|
tao
|
|
2751 |
1217
|
tao
|
try
|
2752 |
|
|
{
|
2753 |
|
|
//check out DBConnection
|
2754 |
|
|
conn=DBConnectionPool.
|
2755 |
|
|
getDBConnection("DocumentImpl.getServerLocationNumber");
|
2756 |
|
|
serialNumber=conn.getCheckOutSerialNumber();
|
2757 |
2092
|
tao
|
|
2758 |
1217
|
tao
|
pStmt = conn.prepareStatement
|
2759 |
1012
|
tao
|
("SELECT server_location FROM xml_documents WHERE docid='" + docId + "'");
|
2760 |
1217
|
tao
|
pStmt.execute();
|
2761 |
1012
|
tao
|
|
2762 |
1217
|
tao
|
ResultSet rs = pStmt.getResultSet();
|
2763 |
|
|
boolean hasRow = rs.next();
|
2764 |
|
|
//if there is entry in xml_documents, get the serverlocation
|
2765 |
|
|
if (hasRow)
|
2766 |
|
|
{
|
2767 |
|
|
serverLocation = rs.getInt(1);
|
2768 |
|
|
pStmt.close();
|
2769 |
|
|
}
|
2770 |
|
|
else
|
2771 |
|
|
{
|
2772 |
|
|
//if htere is no entry in xml_documents, we consider it is new document
|
2773 |
|
|
//the server location is local host and value is 1
|
2774 |
|
|
serverLocation=1;
|
2775 |
|
|
pStmt.close();
|
2776 |
|
|
}
|
2777 |
|
|
}//try
|
2778 |
|
|
finally
|
2779 |
1012
|
tao
|
{
|
2780 |
1217
|
tao
|
try
|
2781 |
|
|
{
|
2782 |
|
|
pStmt.close();
|
2783 |
|
|
}//try
|
2784 |
|
|
catch (Exception ee)
|
2785 |
|
|
{
|
2786 |
|
|
MetaCatUtil.debugMessage("Error in DocumentImpl.getServerLocationNu(): "
|
2787 |
|
|
+ee.getMessage(), 50);
|
2788 |
|
|
}//catch
|
2789 |
|
|
finally
|
2790 |
|
|
{
|
2791 |
|
|
DBConnectionPool.returnDBConnection(conn, serialNumber);
|
2792 |
|
|
}//finally
|
2793 |
|
|
}//finally
|
2794 |
2092
|
tao
|
|
2795 |
1012
|
tao
|
return serverLocation;
|
2796 |
|
|
}
|
2797 |
2092
|
tao
|
|
2798 |
1012
|
tao
|
/**
|
2799 |
1055
|
tao
|
* Given a server name, return its servercode in xml_replication table.
|
2800 |
|
|
* If no server is found, -1 will return
|
2801 |
2092
|
tao
|
* @param serverName,
|
2802 |
1055
|
tao
|
*/
|
2803 |
2092
|
tao
|
private static int getServerCode(String serverName)
|
2804 |
1055
|
tao
|
{
|
2805 |
|
|
PreparedStatement pStmt=null;
|
2806 |
|
|
int serverLocation=-2;
|
2807 |
1217
|
tao
|
DBConnection dbConn = null;
|
2808 |
|
|
int serialNumber = -1;
|
2809 |
|
|
//MetaCatUtil util = new MetaCatUtil();
|
2810 |
2092
|
tao
|
|
2811 |
|
|
|
2812 |
1055
|
tao
|
//we should consider about local host too
|
2813 |
1217
|
tao
|
if (serverName.equals(MetaCatUtil.getLocalReplicationServerName()))
|
2814 |
2092
|
tao
|
{
|
2815 |
1055
|
tao
|
serverLocation=1;
|
2816 |
|
|
return serverLocation;
|
2817 |
|
|
}
|
2818 |
2092
|
tao
|
|
2819 |
|
|
|
2820 |
1055
|
tao
|
try
|
2821 |
|
|
{
|
2822 |
|
|
//check xml_replication table
|
2823 |
1217
|
tao
|
//dbConn=util.openDBConnection();
|
2824 |
|
|
//check out DBConnection
|
2825 |
|
|
dbConn=DBConnectionPool.getDBConnection("DocumentImpl.getServerCode");
|
2826 |
|
|
serialNumber=dbConn.getCheckOutSerialNumber();
|
2827 |
1055
|
tao
|
pStmt = dbConn.prepareStatement
|
2828 |
|
|
("SELECT serverid FROM xml_replication WHERE server='" + serverName +"'");
|
2829 |
|
|
pStmt.execute();
|
2830 |
|
|
|
2831 |
|
|
ResultSet rs = pStmt.getResultSet();
|
2832 |
|
|
boolean hasRow = rs.next();
|
2833 |
|
|
//if there is entry in xml_replication, get the serverid
|
2834 |
|
|
if (hasRow)
|
2835 |
|
|
{
|
2836 |
|
|
serverLocation = rs.getInt(1);
|
2837 |
|
|
pStmt.close();
|
2838 |
|
|
}
|
2839 |
|
|
else
|
2840 |
|
|
{
|
2841 |
|
|
// if htere is no entry in xml_replication, -1 will return
|
2842 |
|
|
serverLocation=-1;
|
2843 |
|
|
pStmt.close();
|
2844 |
|
|
}
|
2845 |
|
|
}
|
2846 |
|
|
catch (Exception e)
|
2847 |
|
|
{
|
2848 |
1217
|
tao
|
MetaCatUtil.debugMessage("Error in DocumentImpl.getServerCode(): "
|
2849 |
1055
|
tao
|
+e.getMessage(), 30);
|
2850 |
|
|
}
|
2851 |
|
|
finally
|
2852 |
|
|
{
|
2853 |
|
|
try
|
2854 |
|
|
{
|
2855 |
1217
|
tao
|
pStmt.close();
|
2856 |
1055
|
tao
|
}
|
2857 |
|
|
catch (Exception ee)
|
2858 |
1217
|
tao
|
{
|
2859 |
|
|
MetaCatUtil.debugMessage("Error in DocumentImpl.getServerCode(): "
|
2860 |
|
|
+ee.getMessage(), 50);
|
2861 |
|
|
}
|
2862 |
|
|
finally
|
2863 |
|
|
{
|
2864 |
|
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
2865 |
|
|
}
|
2866 |
1055
|
tao
|
}
|
2867 |
2092
|
tao
|
|
2868 |
|
|
|
2869 |
1055
|
tao
|
return serverLocation;
|
2870 |
|
|
}
|
2871 |
2092
|
tao
|
|
2872 |
1055
|
tao
|
/**
|
2873 |
|
|
* Insert a server into xml_replcation table
|
2874 |
2092
|
tao
|
* @param server, the name of server
|
2875 |
1055
|
tao
|
*/
|
2876 |
2092
|
tao
|
private static synchronized void
|
2877 |
1292
|
tao
|
insertServerIntoReplicationTable(String server)
|
2878 |
1055
|
tao
|
{
|
2879 |
|
|
PreparedStatement pStmt=null;
|
2880 |
1217
|
tao
|
DBConnection dbConn = null;
|
2881 |
|
|
int serialNumber = -1;
|
2882 |
2092
|
tao
|
|
2883 |
1292
|
tao
|
// Initial value for the server
|
2884 |
|
|
int replicate = 0;
|
2885 |
|
|
int dataReplicate = 0;
|
2886 |
|
|
int hub = 0;
|
2887 |
2092
|
tao
|
|
2888 |
1055
|
tao
|
try
|
2889 |
|
|
{
|
2890 |
1292
|
tao
|
// Get DBConnection
|
2891 |
1217
|
tao
|
dbConn=DBConnectionPool.
|
2892 |
|
|
getDBConnection("DocumentImpl.insertServIntoReplicationTable");
|
2893 |
|
|
serialNumber=dbConn.getCheckOutSerialNumber();
|
2894 |
2092
|
tao
|
|
2895 |
1292
|
tao
|
// Compare the server to dabase
|
2896 |
|
|
pStmt = dbConn.prepareStatement
|
2897 |
|
|
("SELECT serverid FROM xml_replication WHERE server='" + server +"'");
|
2898 |
|
|
pStmt.execute();
|
2899 |
|
|
ResultSet rs = pStmt.getResultSet();
|
2900 |
|
|
boolean hasRow = rs.next();
|
2901 |
|
|
// Close preparedstatement and result set
|
2902 |
|
|
pStmt.close();
|
2903 |
|
|
rs.close();
|
2904 |
2092
|
tao
|
|
2905 |
1292
|
tao
|
// If the server is not in the table, and server is not local host,
|
2906 |
|
|
// insert it
|
2907 |
2092
|
tao
|
if ( !hasRow
|
2908 |
1292
|
tao
|
&& !server.equals(MetaCatUtil.getLocalReplicationServerName()))
|
2909 |
|
|
{
|
2910 |
|
|
// Set auto commit false
|
2911 |
|
|
dbConn.setAutoCommit(false);
|
2912 |
1751
|
tao
|
/*pStmt = dbConn.prepareStatement("INSERT INTO xml_replication " +
|
2913 |
1292
|
tao
|
"(server, last_checked, replicate, datareplicate, hub) " +
|
2914 |
|
|
"VALUES ('" + server + "', to_date(" +
|
2915 |
|
|
"'01/01/00', 'MM/DD/YY'), '" +
|
2916 |
1751
|
tao
|
replicate +"', '"+dataReplicate+"','"+ hub + "')");*/
|
2917 |
|
|
pStmt = dbConn.prepareStatement("INSERT INTO xml_replication " +
|
2918 |
|
|
"(server, last_checked, replicate, datareplicate, hub) " +
|
2919 |
2092
|
tao
|
"VALUES ('" + server + "', " +
|
2920 |
1758
|
tao
|
dbAdapter.toDate("01/01/1980", "MM/DD/YYYY") + ", '" +
|
2921 |
1292
|
tao
|
replicate +"', '"+dataReplicate+"','"+ hub + "')");
|
2922 |
2092
|
tao
|
|
2923 |
|
|
|
2924 |
1055
|
tao
|
pStmt.execute();
|
2925 |
1292
|
tao
|
dbConn.commit();
|
2926 |
|
|
// Increase usage number
|
2927 |
|
|
dbConn.increaseUsageCount(1);
|
2928 |
1055
|
tao
|
pStmt.close();
|
2929 |
2092
|
tao
|
|
2930 |
1292
|
tao
|
}
|
2931 |
1217
|
tao
|
}//try
|
2932 |
1055
|
tao
|
catch (Exception e)
|
2933 |
|
|
{
|
2934 |
1217
|
tao
|
MetaCatUtil.debugMessage("Error in DocumentImpl.insertServerIntoRepli(): "
|
2935 |
1055
|
tao
|
+e.getMessage(), 30);
|
2936 |
1217
|
tao
|
}//catch
|
2937 |
1055
|
tao
|
finally
|
2938 |
|
|
{
|
2939 |
2092
|
tao
|
|
2940 |
1055
|
tao
|
try
|
2941 |
|
|
{
|
2942 |
1292
|
tao
|
// Set auto commit true
|
2943 |
|
|
dbConn.setAutoCommit(true);
|
2944 |
1055
|
tao
|
pStmt.close();
|
2945 |
2092
|
tao
|
|
2946 |
1217
|
tao
|
}//try
|
2947 |
|
|
catch (Exception ee)
|
2948 |
|
|
{
|
2949 |
|
|
MetaCatUtil.debugMessage("Error in DocumentImpl.insetServerIntoRepl(): "
|
2950 |
|
|
+ee.getMessage(), 50);
|
2951 |
|
|
}//catch
|
2952 |
|
|
finally
|
2953 |
|
|
{
|
2954 |
|
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
2955 |
1055
|
tao
|
}
|
2956 |
2092
|
tao
|
|
2957 |
1217
|
tao
|
}//finally
|
2958 |
1055
|
tao
|
|
2959 |
|
|
}
|
2960 |
2092
|
tao
|
|
2961 |
|
|
|
2962 |
1055
|
tao
|
/**
|
2963 |
407
|
jones
|
* the main routine used to test the DBWriter utility.
|
2964 |
|
|
* <p>
|
2965 |
|
|
* Usage: java DocumentImpl <-f filename -a action -d docid>
|
2966 |
|
|
*
|
2967 |
|
|
* @param filename the filename to be loaded into the database
|
2968 |
|
|
* @param action the action to perform (READ, INSERT, UPDATE, DELETE)
|
2969 |
|
|
* @param docid the id of the document to process
|
2970 |
|
|
*/
|
2971 |
|
|
static public void main(String[] args) {
|
2972 |
1217
|
tao
|
DBConnection dbconn = null;
|
2973 |
|
|
int serialNumber = -1;
|
2974 |
407
|
jones
|
try {
|
2975 |
555
|
bojilova
|
String filename = null;
|
2976 |
598
|
bojilova
|
String dtdfilename = null;
|
2977 |
555
|
bojilova
|
String action = null;
|
2978 |
|
|
String docid = null;
|
2979 |
429
|
jones
|
boolean showRuntime = false;
|
2980 |
|
|
boolean useOldReadAlgorithm = false;
|
2981 |
407
|
jones
|
|
2982 |
408
|
jones
|
// Parse the command line arguments
|
2983 |
407
|
jones
|
for ( int i=0 ; i < args.length; ++i ) {
|
2984 |
|
|
if ( args[i].equals( "-f" ) ) {
|
2985 |
|
|
filename = args[++i];
|
2986 |
598
|
bojilova
|
} else if ( args[i].equals( "-r" ) ) {
|
2987 |
|
|
dtdfilename = args[++i];
|
2988 |
407
|
jones
|
} else if ( args[i].equals( "-a" ) ) {
|
2989 |
|
|
action = args[++i];
|
2990 |
|
|
} else if ( args[i].equals( "-d" ) ) {
|
2991 |
|
|
docid = args[++i];
|
2992 |
429
|
jones
|
} else if ( args[i].equals( "-t" ) ) {
|
2993 |
|
|
showRuntime = true;
|
2994 |
|
|
} else if ( args[i].equals( "-old" ) ) {
|
2995 |
|
|
useOldReadAlgorithm = true;
|
2996 |
407
|
jones
|
} else {
|
2997 |
|
|
System.err.println
|
2998 |
|
|
( " args[" +i+ "] '" +args[i]+ "' ignored." );
|
2999 |
|
|
}
|
3000 |
|
|
}
|
3001 |
2092
|
tao
|
|
3002 |
408
|
jones
|
// Check if the required arguments are provided
|
3003 |
407
|
jones
|
boolean argsAreValid = false;
|
3004 |
|
|
if (action != null) {
|
3005 |
|
|
if (action.equals("INSERT")) {
|
3006 |
|
|
if (filename != null) {
|
3007 |
|
|
argsAreValid = true;
|
3008 |
2092
|
tao
|
}
|
3009 |
407
|
jones
|
} else if (action.equals("UPDATE")) {
|
3010 |
|
|
if ((filename != null) && (docid != null)) {
|
3011 |
|
|
argsAreValid = true;
|
3012 |
2092
|
tao
|
}
|
3013 |
407
|
jones
|
} else if (action.equals("DELETE")) {
|
3014 |
|
|
if (docid != null) {
|
3015 |
|
|
argsAreValid = true;
|
3016 |
2092
|
tao
|
}
|
3017 |
407
|
jones
|
} else if (action.equals("READ")) {
|
3018 |
|
|
if (docid != null) {
|
3019 |
|
|
argsAreValid = true;
|
3020 |
2092
|
tao
|
}
|
3021 |
|
|
}
|
3022 |
|
|
}
|
3023 |
407
|
jones
|
|
3024 |
408
|
jones
|
// Print usage message if the arguments are not valid
|
3025 |
407
|
jones
|
if (!argsAreValid) {
|
3026 |
|
|
System.err.println("Wrong number of arguments!!!");
|
3027 |
|
|
System.err.println(
|
3028 |
598
|
bojilova
|
"USAGE: java DocumentImpl [-t] <-a INSERT> [-d docid] <-f filename> "+
|
3029 |
680
|
bojilova
|
"[-r dtdfilename]");
|
3030 |
407
|
jones
|
System.err.println(
|
3031 |
598
|
bojilova
|
" OR: java DocumentImpl [-t] <-a UPDATE -d docid -f filename> " +
|
3032 |
680
|
bojilova
|
"[-r dtdfilename]");
|
3033 |
407
|
jones
|
System.err.println(
|
3034 |
429
|
jones
|
" OR: java DocumentImpl [-t] <-a DELETE -d docid>");
|
3035 |
407
|
jones
|
System.err.println(
|
3036 |
429
|
jones
|
" OR: java DocumentImpl [-t] [-old] <-a READ -d docid>");
|
3037 |
407
|
jones
|
return;
|
3038 |
|
|
}
|
3039 |
2092
|
tao
|
|
3040 |
429
|
jones
|
// Time the request if asked for
|
3041 |
|
|
double startTime = System.currentTimeMillis();
|
3042 |
2092
|
tao
|
|
3043 |
407
|
jones
|
// Open a connection to the database
|
3044 |
|
|
MetaCatUtil util = new MetaCatUtil();
|
3045 |
2092
|
tao
|
|
3046 |
1217
|
tao
|
dbconn=DBConnectionPool.getDBConnection("DocumentImpl.main");
|
3047 |
|
|
serialNumber=dbconn.getCheckOutSerialNumber();
|
3048 |
407
|
jones
|
|
3049 |
463
|
berkley
|
double connTime = System.currentTimeMillis();
|
3050 |
408
|
jones
|
// Execute the action requested (READ, INSERT, UPDATE, DELETE)
|
3051 |
407
|
jones
|
if (action.equals("READ")) {
|
3052 |
1217
|
tao
|
DocumentImpl xmldoc = new DocumentImpl(docid );
|
3053 |
429
|
jones
|
if (useOldReadAlgorithm) {
|
3054 |
|
|
System.out.println(xmldoc.readUsingSlowAlgorithm());
|
3055 |
|
|
} else {
|
3056 |
1480
|
tao
|
xmldoc.toXml(new PrintWriter(System.out), null, null, true);
|
3057 |
429
|
jones
|
}
|
3058 |
408
|
jones
|
} else if (action.equals("DELETE")) {
|
3059 |
1217
|
tao
|
DocumentImpl.delete(docid, null, null);
|
3060 |
408
|
jones
|
System.out.println("Document deleted: " + docid);
|
3061 |
407
|
jones
|
} else {
|
3062 |
1383
|
tao
|
/*String newdocid = DocumentImpl.write(dbconn, filename, null,
|
3063 |
598
|
bojilova
|
dtdfilename, action, docid,
|
3064 |
|
|
null, null);
|
3065 |
408
|
jones
|
if ((docid != null) && (!docid.equals(newdocid))) {
|
3066 |
|
|
if (action.equals("INSERT")) {
|
3067 |
|
|
System.out.println("New document ID generated!!! ");
|
3068 |
|
|
} else if (action.equals("UPDATE")) {
|
3069 |
|
|
System.out.println("ERROR: Couldn't update document!!! ");
|
3070 |
407
|
jones
|
}
|
3071 |
408
|
jones
|
} else if ((docid == null) && (action.equals("UPDATE"))) {
|
3072 |
|
|
System.out.println("ERROR: Couldn't update document!!! ");
|
3073 |
407
|
jones
|
}
|
3074 |
408
|
jones
|
System.out.println("Document processing finished for: " + filename
|
3075 |
1383
|
tao
|
+ " (" + newdocid + ")");*/
|
3076 |
407
|
jones
|
}
|
3077 |
|
|
|
3078 |
429
|
jones
|
double stopTime = System.currentTimeMillis();
|
3079 |
463
|
berkley
|
double dbOpenTime = (connTime - startTime)/1000;
|
3080 |
|
|
double insertTime = (stopTime - connTime)/1000;
|
3081 |
429
|
jones
|
double executionTime = (stopTime - startTime)/1000;
|
3082 |
|
|
if (showRuntime) {
|
3083 |
2092
|
tao
|
System.out.println("\n\nTotal Execution time was: " +
|
3084 |
463
|
berkley
|
executionTime + " seconds.");
|
3085 |
2092
|
tao
|
System.out.println("Time to open DB connection was: " + dbOpenTime +
|
3086 |
463
|
berkley
|
" seconds.");
|
3087 |
|
|
System.out.println("Time to insert document was: " + insertTime +
|
3088 |
|
|
" seconds.");
|
3089 |
429
|
jones
|
}
|
3090 |
463
|
berkley
|
dbconn.close();
|
3091 |
407
|
jones
|
} catch (McdbException me) {
|
3092 |
|
|
me.toXml(new PrintWriter(System.err));
|
3093 |
|
|
} catch (AccessionNumberException ane) {
|
3094 |
|
|
System.out.println(ane.getMessage());
|
3095 |
|
|
} catch (Exception e) {
|
3096 |
|
|
System.err.println("EXCEPTION HANDLING REQUIRED");
|
3097 |
|
|
System.err.println(e.getMessage());
|
3098 |
|
|
e.printStackTrace(System.err);
|
3099 |
|
|
}
|
3100 |
1217
|
tao
|
finally
|
3101 |
|
|
{
|
3102 |
|
|
// Return db connection
|
3103 |
|
|
DBConnectionPool.returnDBConnection(dbconn, serialNumber);
|
3104 |
|
|
}
|
3105 |
407
|
jones
|
}
|
3106 |
393
|
jones
|
}
|