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/**
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* '$RCSfile$'
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* Purpose: A Class that searches a relational DB for elements and
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* attributes that have free text matches a query string,
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* or structured query matches to a path specified node in the
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* XML hierarchy. It returns a result set consisting of the
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* document ID for each document that satisfies the query
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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: tao $'
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* '$Date: 2003-03-04 12:05:18 -0800 (Tue, 04 Mar 2003) $'
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* '$Revision: 1450 $'
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*
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* This program is free software; you can redistribute it and/or modify
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* it under the terms of the GNU General Public License as published by
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* the Free Software Foundation; either version 2 of the License, or
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* (at your option) any later version.
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*
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* This program is distributed in the hope that it will be useful,
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* but WITHOUT ANY WARRANTY; without even the implied warranty of
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* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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* GNU General Public License for more details.
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*
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* You should have received a copy of the GNU General Public License
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* along with this program; if not, write to the Free Software
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* Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
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*/
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package edu.ucsb.nceas.metacat;
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import edu.ucsb.nceas.morpho.datapackage.*;
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import java.io.*;
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import java.util.Vector;
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import java.util.zip.*;
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import java.net.URL;
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import java.net.MalformedURLException;
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import java.sql.*;
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import java.util.Stack;
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import java.util.Hashtable;
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import java.util.Enumeration;
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import java.io.File;
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import java.io.FileWriter;
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import java.io.BufferedWriter;
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import javax.servlet.ServletOutputStream;
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/**
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* A Class that searches a relational DB for elements and
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* attributes that have free text matches a query string,
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* or structured query matches to a path specified node in the
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* XML hierarchy. It returns a result set consisting of the
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* document ID for each document that satisfies the query
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*/
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public class DBQuery {
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static final int ALL = 1;
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static final int WRITE = 2;
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static final int READ = 4;
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//private Connection conn = null;
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private String parserName = null;
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private MetaCatUtil util = new MetaCatUtil();
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/**
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* the main routine used to test the DBQuery utility.
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* <p>
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* Usage: java DBQuery <xmlfile>
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*
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* @param xmlfile the filename of the xml file containing the query
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*/
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static public void main(String[] args) {
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if (args.length < 1)
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{
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System.err.println("Wrong number of arguments!!!");
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System.err.println("USAGE: java DBQuery [-t] [-index] <xmlfile>");
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return;
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} else {
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try {
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int i = 0;
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boolean showRuntime = false;
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boolean useXMLIndex = false;
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if ( args[i].equals( "-t" ) ) {
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showRuntime = true;
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i++;
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}
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if ( args[i].equals( "-index" ) ) {
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useXMLIndex = true;
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i++;
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}
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String xmlfile = args[i];
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// Time the request if asked for
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double startTime = System.currentTimeMillis();
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// Open a connection to the database
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MetaCatUtil util = new MetaCatUtil();
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//Connection dbconn = util.openDBConnection();
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double connTime = System.currentTimeMillis();
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// Execute the query
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DBQuery queryobj = new DBQuery(util.getOption("saxparser"));
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FileReader xml = new FileReader(new File(xmlfile));
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Hashtable nodelist = null;
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nodelist = queryobj.findDocuments(xml, null, null, useXMLIndex);
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// Print the reulting document listing
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StringBuffer result = new StringBuffer();
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String document = null;
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String docid = null;
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result.append("<?xml version=\"1.0\"?>\n");
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result.append("<resultset>\n");
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if (!showRuntime)
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{
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Enumeration doclist = nodelist.keys();
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while (doclist.hasMoreElements()) {
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docid = (String)doclist.nextElement();
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document = (String)nodelist.get(docid);
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result.append(" <document>\n " + document +
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"\n </document>\n");
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}
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result.append("</resultset>\n");
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}
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// Time the request if asked for
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double stopTime = System.currentTimeMillis();
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double dbOpenTime = (connTime - startTime)/1000;
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double readTime = (stopTime - connTime)/1000;
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double executionTime = (stopTime - startTime)/1000;
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if (showRuntime) {
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System.out.print(" " + executionTime);
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System.out.print(" " + dbOpenTime);
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System.out.print(" " + readTime);
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System.out.print(" " + nodelist.size());
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System.out.println();
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}
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//System.out.println(result);
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//write into a file "result.txt"
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if (!showRuntime)
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{
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File f = new File("./result.txt");
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FileWriter fw = new FileWriter(f);
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BufferedWriter out = new BufferedWriter(fw);
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out.write(result.toString());
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out.flush();
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out.close();
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fw.close();
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}
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}
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catch (Exception e) {
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System.err.println("Error in DBQuery.main");
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System.err.println(e.getMessage());
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e.printStackTrace(System.err);
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}
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}
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}
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/**
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* construct an instance of the DBQuery class
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*
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* <p>Generally, one would call the findDocuments() routine after creating
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* an instance to specify the search query</p>
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*
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* @param conn the JDBC connection that we use for the query
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* @param parserName the fully qualified name of a Java class implementing
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* the org.xml.sax.XMLReader interface
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*/
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public DBQuery(String parserName )
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throws IOException,
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SQLException,
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ClassNotFoundException {
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//this.conn = conn;
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this.parserName = parserName;
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}
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/**
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* routine to search the elements and attributes looking to match query
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*
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* @param xmlquery the xml serialization of the query (@see pathquery.dtd)
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* @param user the username of the user
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* @param group the group of the user
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*/
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public Hashtable findDocuments(Reader xmlquery, String user, String[] groups)
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{
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return findDocuments(xmlquery, user, groups, true);
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}
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/**
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* routine to search the elements and attributes looking to match query
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*
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* @param xmlquery the xml serialization of the query (@see pathquery.dtd)
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* @param user the username of the user
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* @param group the group of the user
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* @param useXMLIndex flag whether to search using the path index
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*/
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public Hashtable findDocuments(Reader xmlquery, String user, String[] groups,
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boolean useXMLIndex)
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{
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Hashtable docListResult = new Hashtable();
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PreparedStatement pstmt = null;
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String docid = null;
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String docname = null;
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String doctype = null;
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String createDate = null;
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String updateDate = null;
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String fieldname = null;
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String fielddata = null;
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String relation = null;
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//Connection dbconn = null;
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//Connection dbconn2 = null;
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int rev = 0;
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StringBuffer document = null;
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DBConnection dbconn = null;
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int serialNumber = -1;
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try {
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dbconn=DBConnectionPool.getDBConnection("DBQuery.findDocuments");
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serialNumber=dbconn.getCheckOutSerialNumber();
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// Get the XML query and covert it into a SQL statment
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QuerySpecification qspec = new QuerySpecification(xmlquery,
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parserName,
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util.getOption("accNumSeparator"));
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String query = qspec.printSQL(useXMLIndex);
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String ownerQuery = getOwnerQuery(user);
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MetaCatUtil.debugMessage("query: "+query, 30);
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//MetaCatUtil.debugMessage("query: "+ownerQuery, 30);
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// if query is not the owner query, we need to check the permission
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// otherwise we don't need (owner has all permission by default)
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if (!query.equals(ownerQuery))
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{
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// set user name and group
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qspec.setUserName(user);
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qspec.setGroup(groups);
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// Get access query
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String accessQuery = qspec.getAccessQuery();
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query = query + accessQuery;
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MetaCatUtil.debugMessage(" final query: "+query, 30);
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}
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double startTime = System.currentTimeMillis()/1000;
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pstmt = dbconn.prepareStatement(query);
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// Execute the SQL query using the JDBC connection
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pstmt.execute();
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ResultSet rs = pstmt.getResultSet();
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double queryExecuteTime =System.currentTimeMillis()/1000;
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MetaCatUtil.debugMessage("Time for execute query: "+
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(queryExecuteTime -startTime), 30);
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boolean tableHasRows = rs.next();
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while (tableHasRows)
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{
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docid = rs.getString(1).trim();
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//long checkTimeStart = System.currentTimeMillis();
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//boolean permit =hasPermission(user, groups, docid);
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//long checkTimeEnd = System.currentTimeMillis();
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//MetaCatUtil.debugMessage("check permission time: "+
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//(checkTimeEnd - checkTimeStart), 30);
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//if ( !permit ) {
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// Advance to the next record in the cursor
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//tableHasRows = rs.next();
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//continue;
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//}
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docname = rs.getString(2);
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doctype = rs.getString(3);
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createDate = rs.getString(4);
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updateDate = rs.getString(5);
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rev = rs.getInt(6);
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// if there are returndocs to match, backtracking can be performed
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// otherwise, just return the document that was hit
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Vector returndocVec = qspec.getReturnDocList();
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if (returndocVec.size() != 0 && !returndocVec.contains(doctype)
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&& !qspec.isPercentageSearch())
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{
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MetaCatUtil.debugMessage("Back tracing now...", 20);
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String sep = util.getOption("accNumSeparator");
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StringBuffer btBuf = new StringBuffer();
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btBuf.append("select docid from xml_relation where ");
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//build the doctype list for the backtracking sql statement
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btBuf.append("packagetype in (");
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for(int i=0; i<returndocVec.size(); i++)
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{
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btBuf.append("'").append((String)returndocVec.get(i)).append("'");
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if (i != (returndocVec.size() - 1))
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{
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btBuf.append(", ");
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}
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}
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btBuf.append(") ");
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btBuf.append("and (subject like '");
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btBuf.append(docid).append("'");
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btBuf.append("or object like '");
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btBuf.append(docid).append("')");
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PreparedStatement npstmt = dbconn.
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prepareStatement(btBuf.toString());
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//should incease usage count
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dbconn.increaseUsageCount(1);
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npstmt.execute();
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ResultSet btrs = npstmt.getResultSet();
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boolean hasBtRows = btrs.next();
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while (hasBtRows)
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{ //there was a backtrackable document found
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DocumentImpl xmldoc = null;
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String packageDocid = btrs.getString(1);
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util.debugMessage("Getting document for docid: "+packageDocid,40);
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try
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{
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// THIS CONSTRUCTOR BUILDS THE WHOLE XML doc not needed here
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// xmldoc = new DocumentImpl(dbconn, packageDocid);
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// thus use the following to get the doc info only
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// xmldoc = new DocumentImpl(dbconn);
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xmldoc = new DocumentImpl(packageDocid, false);
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if (xmldoc == null) {
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util.debugMessage("Document was null for: "+packageDocid, 50);
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}
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}
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catch(Exception e)
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{
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System.out.println("Error getting document in " +
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"DBQuery.findDocuments: " + e.getMessage());
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}
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335
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String docid_org = xmldoc.getDocID();
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if (docid_org == null) {
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util.debugMessage("Docid_org was null.", 40);
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}
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docid = docid_org.trim();
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docname = xmldoc.getDocname();
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doctype = xmldoc.getDoctype();
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createDate = xmldoc.getCreateDate();
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updateDate = xmldoc.getUpdateDate();
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rev = xmldoc.getRev();
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document = new StringBuffer();
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348
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349
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String completeDocid = docid + util.getOption("accNumSeparator");
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completeDocid += rev;
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document.append("<docid>").append(completeDocid);
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document.append("</docid>");
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if (docname != null) {
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document.append("<docname>" + docname + "</docname>");
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}
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if (doctype != null) {
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document.append("<doctype>" + doctype + "</doctype>");
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}
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if (createDate != null) {
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document.append("<createdate>" + createDate + "</createdate>");
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361
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}
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362
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if (updateDate != null) {
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document.append("<updatedate>" + updateDate + "</updatedate>");
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364
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}
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// Store the document id and the root node id
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docListResult.put(docid,(String)document.toString());
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367
|
|
368
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// Get the next package document linked to our hit
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369
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hasBtRows = btrs.next();
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370
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}
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371
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npstmt.close();
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372
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btrs.close();
|
373
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}
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374
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else if (returndocVec.size() != 0 && returndocVec.contains(doctype))
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375
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{
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376
|
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377
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document = new StringBuffer();
|
378
|
|
379
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String completeDocid = docid + util.getOption("accNumSeparator");
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380
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completeDocid += rev;
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381
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document.append("<docid>").append(completeDocid).append("</docid>");
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382
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if (docname != null) {
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383
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document.append("<docname>" + docname + "</docname>");
|
384
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}
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385
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if (doctype != null) {
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386
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document.append("<doctype>" + doctype + "</doctype>");
|
387
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}
|
388
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if (createDate != null) {
|
389
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document.append("<createdate>" + createDate + "</createdate>");
|
390
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}
|
391
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if (updateDate != null) {
|
392
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document.append("<updatedate>" + updateDate + "</updatedate>");
|
393
|
}
|
394
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// Store the document id and the root node id
|
395
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docListResult.put(docid,(String)document.toString());
|
396
|
|
397
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}
|
398
|
|
399
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// Advance to the next record in the cursor
|
400
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tableHasRows = rs.next();
|
401
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}
|
402
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rs.close();
|
403
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pstmt.close();
|
404
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double docListTime =System.currentTimeMillis()/1000;
|
405
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MetaCatUtil.debugMessage("prepare docid list time: "
|
406
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+(docListTime-queryExecuteTime), 30);
|
407
|
|
408
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if (qspec.containsExtendedSQL())
|
409
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{
|
410
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Vector extendedFields = new Vector(qspec.getReturnFieldList());
|
411
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Vector results = new Vector();
|
412
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Enumeration keylist = docListResult.keys();
|
413
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StringBuffer doclist = new StringBuffer();
|
414
|
Hashtable parentidList = new Hashtable();
|
415
|
Hashtable returnFieldValue = new Hashtable();
|
416
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while(keylist.hasMoreElements())
|
417
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{
|
418
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doclist.append("'");
|
419
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doclist.append((String)keylist.nextElement());
|
420
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doclist.append("',");
|
421
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}
|
422
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if (doclist.length() > 0)
|
423
|
{
|
424
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Hashtable controlPairs = new Hashtable();
|
425
|
double extendedQueryStart = System.currentTimeMillis()/1000;
|
426
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doclist.deleteCharAt(doclist.length()-1); //remove the last comma
|
427
|
// check if user has permission to see the return field data
|
428
|
String accessControlSQL = qspec.
|
429
|
printAccessControlSQLForReturnField(doclist.toString());
|
430
|
pstmt = dbconn.prepareStatement(accessControlSQL);
|
431
|
//increase dbconnection usage count
|
432
|
dbconn.increaseUsageCount(1);
|
433
|
pstmt.execute();
|
434
|
rs = pstmt.getResultSet();
|
435
|
tableHasRows = rs.next();
|
436
|
while(tableHasRows)
|
437
|
{
|
438
|
long startNodeId = rs.getLong(1);
|
439
|
long endNodeId = rs.getLong(2);
|
440
|
controlPairs.put(new Long(startNodeId), new Long(endNodeId));
|
441
|
tableHasRows = rs.next();
|
442
|
}
|
443
|
|
444
|
double extendedAccessQueryEnd = System.currentTimeMillis()/1000;
|
445
|
MetaCatUtil.debugMessage("Time for execute access extended query: "
|
446
|
+(extendedAccessQueryEnd-extendedQueryStart), 30);
|
447
|
|
448
|
String extendedQuery = qspec.printExtendedSQL(doclist.toString(),
|
449
|
controlPairs);
|
450
|
MetaCatUtil.debugMessage("Extended query: "+ extendedQuery, 30);
|
451
|
pstmt = dbconn.prepareStatement(extendedQuery);
|
452
|
//increase dbconnection usage count
|
453
|
dbconn.increaseUsageCount(1);
|
454
|
pstmt.execute();
|
455
|
rs = pstmt.getResultSet();
|
456
|
double extendedQueryEnd = System.currentTimeMillis()/1000;
|
457
|
MetaCatUtil.debugMessage("Time for execute extended query: "
|
458
|
+(extendedQueryEnd-extendedQueryStart), 30);
|
459
|
tableHasRows = rs.next();
|
460
|
while(tableHasRows)
|
461
|
{
|
462
|
ReturnFieldValue returnValue = new ReturnFieldValue();
|
463
|
docid = rs.getString(1).trim();
|
464
|
fieldname = rs.getString(2);
|
465
|
fielddata = rs.getString(3);
|
466
|
String parentId = rs.getString(4);
|
467
|
|
468
|
StringBuffer value = new StringBuffer();
|
469
|
if (!parentidList.containsKey(parentId))
|
470
|
{
|
471
|
// don't need to merger nodedata
|
472
|
value.append("<param name=\"");
|
473
|
value.append(fieldname);
|
474
|
value.append("\">");
|
475
|
value.append(fielddata);
|
476
|
value.append("</param>");
|
477
|
//set returnvalue
|
478
|
returnValue.setDocid(docid);
|
479
|
returnValue.setFieldValue(fielddata);
|
480
|
returnValue.setXMLFieldValue(value.toString());
|
481
|
// Store it in hastable
|
482
|
parentidList.put(parentId, returnValue);
|
483
|
}
|
484
|
else
|
485
|
{
|
486
|
// need to merge nodedata if they have same parent id ant
|
487
|
// node type is text
|
488
|
fielddata = (String)((ReturnFieldValue)
|
489
|
parentidList.get(parentId)).getFieldValue() + fielddata;
|
490
|
value.append("<param name=\"");
|
491
|
value.append(fieldname);
|
492
|
value.append("\">");
|
493
|
value.append(fielddata);
|
494
|
value.append("</param>");
|
495
|
returnValue.setDocid(docid);
|
496
|
returnValue.setFieldValue(fielddata);
|
497
|
returnValue.setXMLFieldValue(value.toString());
|
498
|
// remove the old return value from paretnidList
|
499
|
parentidList.remove(parentId);
|
500
|
// store the new return value in parentidlit
|
501
|
parentidList.put(parentId, returnValue);
|
502
|
}
|
503
|
tableHasRows = rs.next();
|
504
|
}//while
|
505
|
rs.close();
|
506
|
pstmt.close();
|
507
|
|
508
|
// put the merger node data info into doclistReult
|
509
|
Enumeration xmlFieldValue = parentidList.elements();
|
510
|
while( xmlFieldValue.hasMoreElements() )
|
511
|
{
|
512
|
ReturnFieldValue object = (ReturnFieldValue)
|
513
|
xmlFieldValue.nextElement();
|
514
|
docid = object.getDocid();
|
515
|
if (docListResult.containsKey(docid))
|
516
|
{
|
517
|
String removedelement = (String)docListResult.remove(docid);
|
518
|
docListResult.put(docid, removedelement +
|
519
|
object.getXMLFieldValue());
|
520
|
}
|
521
|
else
|
522
|
{
|
523
|
docListResult.put(docid, object.getXMLFieldValue());
|
524
|
}
|
525
|
}//while
|
526
|
double docListResultEnd = System.currentTimeMillis()/1000;
|
527
|
MetaCatUtil.debugMessage("Time for prepare doclistresult after"+
|
528
|
" execute extended query: "
|
529
|
+(docListResultEnd-extendedQueryEnd), 30);
|
530
|
|
531
|
|
532
|
// get attribures return
|
533
|
docListResult = getAttributeValueForReturn
|
534
|
(qspec,docListResult, doclist.toString());
|
535
|
}//if doclist lenght is great than zero
|
536
|
|
537
|
}//if has extended query
|
538
|
|
539
|
|
540
|
//this loop adds the relation data to the resultdoc
|
541
|
//this code might be able to be added to the backtracking code above
|
542
|
double startRelation = System.currentTimeMillis()/1000;
|
543
|
Enumeration docidkeys = docListResult.keys();
|
544
|
while(docidkeys.hasMoreElements())
|
545
|
{
|
546
|
//String connstring = "metacat://"+util.getOption("server")+"?docid=";
|
547
|
String connstring = "%docid=";
|
548
|
String docidkey = (String)docidkeys.nextElement();
|
549
|
pstmt = dbconn.prepareStatement(qspec.printRelationSQL(docidkey));
|
550
|
pstmt.execute();
|
551
|
rs = pstmt.getResultSet();
|
552
|
tableHasRows = rs.next();
|
553
|
while(tableHasRows)
|
554
|
{
|
555
|
String sub = rs.getString(1);
|
556
|
String rel = rs.getString(2);
|
557
|
String obj = rs.getString(3);
|
558
|
String subDT = rs.getString(4);
|
559
|
String objDT = rs.getString(5);
|
560
|
|
561
|
document = new StringBuffer();
|
562
|
document.append("<triple>");
|
563
|
document.append("<subject>").append(MetaCatUtil.normalize(sub));
|
564
|
document.append("</subject>");
|
565
|
if ( subDT != null ) {
|
566
|
document.append("<subjectdoctype>").append(subDT);
|
567
|
document.append("</subjectdoctype>");
|
568
|
}
|
569
|
document.append("<relationship>").
|
570
|
append(MetaCatUtil.normalize(rel));
|
571
|
document.append("</relationship>");
|
572
|
document.append("<object>").append(MetaCatUtil.normalize(obj));
|
573
|
document.append("</object>");
|
574
|
if ( objDT != null ) {
|
575
|
document.append("<objectdoctype>").append(objDT);
|
576
|
document.append("</objectdoctype>");
|
577
|
}
|
578
|
document.append("</triple>");
|
579
|
|
580
|
String removedelement = (String)docListResult.remove(docidkey);
|
581
|
docListResult.put(docidkey, removedelement +
|
582
|
document.toString());
|
583
|
tableHasRows = rs.next();
|
584
|
}
|
585
|
rs.close();
|
586
|
pstmt.close();
|
587
|
}
|
588
|
double endRelation = System.currentTimeMillis()/1000;
|
589
|
MetaCatUtil.debugMessage("Time for adding relation to docListResult: "+
|
590
|
(endRelation-startRelation), 30);
|
591
|
|
592
|
} catch (SQLException e) {
|
593
|
System.err.println("SQL Error in DBQuery.findDocuments: " +
|
594
|
e.getMessage());
|
595
|
} catch (IOException ioe) {
|
596
|
System.err.println("IO error in DBQuery.findDocuments:");
|
597
|
System.err.println(ioe.getMessage());
|
598
|
} catch (Exception ee) {
|
599
|
System.err.println("Exception in DBQuery.findDocuments: " +
|
600
|
ee.getMessage());
|
601
|
ee.printStackTrace(System.err);
|
602
|
}
|
603
|
finally
|
604
|
{
|
605
|
try
|
606
|
{
|
607
|
pstmt.close();
|
608
|
}//try
|
609
|
catch (SQLException sqlE)
|
610
|
{
|
611
|
MetaCatUtil.debugMessage("Error in DBQuery.findDocuments: "
|
612
|
+sqlE.getMessage(), 30);
|
613
|
}//catch
|
614
|
finally
|
615
|
{
|
616
|
DBConnectionPool.returnDBConnection(dbconn, serialNumber);
|
617
|
}//finally
|
618
|
}//finally
|
619
|
//System.out.println("docListResult: ");
|
620
|
//System.out.println(docListResult.toString());
|
621
|
return docListResult;
|
622
|
}
|
623
|
|
624
|
/*
|
625
|
* A method to return search result after running a query which return
|
626
|
* field have attribue
|
627
|
*/
|
628
|
private Hashtable getAttributeValueForReturn(QuerySpecification squery,
|
629
|
Hashtable docInformationList,
|
630
|
String docList)
|
631
|
{
|
632
|
StringBuffer XML = null;
|
633
|
String sql = null;
|
634
|
DBConnection dbconn = null;
|
635
|
PreparedStatement pstmt = null;
|
636
|
ResultSet rs = null;
|
637
|
int serialNumber = -1;
|
638
|
boolean tableHasRows =false;
|
639
|
|
640
|
//check the parameter
|
641
|
if (squery == null || docList==null || docList.length() <0)
|
642
|
{
|
643
|
return docInformationList;
|
644
|
}
|
645
|
|
646
|
// if has attribute as return field
|
647
|
if (squery.containAttributeReturnField())
|
648
|
{
|
649
|
sql = squery.printAttributeQuery(docList);
|
650
|
try
|
651
|
{
|
652
|
dbconn=DBConnectionPool.getDBConnection("DBQuery.getAttributeValue");
|
653
|
serialNumber=dbconn.getCheckOutSerialNumber();
|
654
|
pstmt = dbconn.prepareStatement(sql);
|
655
|
pstmt.execute();
|
656
|
rs = pstmt.getResultSet();
|
657
|
tableHasRows = rs.next();
|
658
|
while(tableHasRows)
|
659
|
{
|
660
|
String docid = rs.getString(1).trim();
|
661
|
String fieldname = rs.getString(2);
|
662
|
String fielddata = rs.getString(3);
|
663
|
String attirbuteName = rs.getString(4);
|
664
|
XML = new StringBuffer();
|
665
|
|
666
|
XML.append("<param name=\"");
|
667
|
XML.append(fieldname);
|
668
|
XML.append(QuerySpecification.ATTRIBUTESYMBOL);
|
669
|
XML.append(attirbuteName);
|
670
|
XML.append("\">");
|
671
|
XML.append(fielddata);
|
672
|
XML.append("</param>");
|
673
|
tableHasRows = rs.next();
|
674
|
|
675
|
if (docInformationList.containsKey(docid))
|
676
|
{
|
677
|
String removedelement = (String)docInformationList.remove(docid);
|
678
|
docInformationList.put(docid, removedelement + XML.toString());
|
679
|
}
|
680
|
else
|
681
|
{
|
682
|
docInformationList.put(docid, XML.toString());
|
683
|
}
|
684
|
}//while
|
685
|
rs.close();
|
686
|
pstmt.close();
|
687
|
}
|
688
|
catch(Exception se)
|
689
|
{
|
690
|
MetaCatUtil.debugMessage("Error in DBQuery.getAttributeValue1: "
|
691
|
+se.getMessage(), 30);
|
692
|
}
|
693
|
finally
|
694
|
{
|
695
|
try
|
696
|
{
|
697
|
pstmt.close();
|
698
|
}//try
|
699
|
catch (SQLException sqlE)
|
700
|
{
|
701
|
MetaCatUtil.debugMessage("Error in DBQuery.getAttributeValue2: "
|
702
|
+sqlE.getMessage(), 30);
|
703
|
}//catch
|
704
|
finally
|
705
|
{
|
706
|
DBConnectionPool.returnDBConnection(dbconn, serialNumber);
|
707
|
}//finally
|
708
|
}//finally
|
709
|
}//if
|
710
|
return docInformationList;
|
711
|
|
712
|
}
|
713
|
|
714
|
|
715
|
/*
|
716
|
* A method to create a query to get owner's docid list
|
717
|
*/
|
718
|
private String getOwnerQuery(String owner)
|
719
|
{
|
720
|
StringBuffer self = new StringBuffer();
|
721
|
|
722
|
self.append("SELECT docid,docname,doctype,");
|
723
|
self.append("date_created, date_updated, rev ");
|
724
|
self.append("FROM xml_documents WHERE docid IN (");
|
725
|
self.append("(");
|
726
|
self.append("SELECT DISTINCT docid FROM xml_nodes WHERE \n");
|
727
|
self.append("nodedata LIKE '%%%' ");
|
728
|
self.append(") \n");
|
729
|
self.append(") ");
|
730
|
self.append(" AND (");
|
731
|
self.append(" user_owner = '" + owner + "'");
|
732
|
self.append(") ");
|
733
|
return self.toString();
|
734
|
}
|
735
|
/**
|
736
|
* returns a string array of the contents of a particular node.
|
737
|
* If the node appears more than once, the contents are returned
|
738
|
* in the order in which they appearred in the document.
|
739
|
* @param nodename the name or path of the particular node.
|
740
|
* @param docid the docid of the document you want the node from.
|
741
|
*/
|
742
|
public static Object[] getNodeContent(String nodename, String docid)
|
743
|
{
|
744
|
DBConnection dbconn = null;
|
745
|
int serialNumber = -1;
|
746
|
StringBuffer query = new StringBuffer();
|
747
|
Vector result = new Vector();
|
748
|
PreparedStatement pstmt = null;
|
749
|
query.append("select nodedata from xml_nodes where parentnodeid in ");
|
750
|
query.append("(select nodeid from xml_index where path like '");
|
751
|
query.append(nodename);
|
752
|
query.append("' and docid like '").append(docid).append("')");
|
753
|
try
|
754
|
{
|
755
|
dbconn=DBConnectionPool.getDBConnection("DBQuery.getNodeContent");
|
756
|
serialNumber=dbconn.getCheckOutSerialNumber();
|
757
|
pstmt = dbconn.prepareStatement(query.toString());
|
758
|
|
759
|
// Execute the SQL query using the JDBC connection
|
760
|
pstmt.execute();
|
761
|
ResultSet rs = pstmt.getResultSet();
|
762
|
boolean tableHasRows = rs.next();
|
763
|
while (tableHasRows)
|
764
|
{
|
765
|
result.add(rs.getString(1));
|
766
|
//System.out.println(rs.getString(1));
|
767
|
tableHasRows = rs.next();
|
768
|
}
|
769
|
}
|
770
|
catch (SQLException e)
|
771
|
{
|
772
|
System.err.println("Error in DBQuery.getNodeContent: " + e.getMessage());
|
773
|
} finally {
|
774
|
try
|
775
|
{
|
776
|
pstmt.close();
|
777
|
}
|
778
|
catch(SQLException sqle)
|
779
|
{}
|
780
|
finally
|
781
|
{
|
782
|
DBConnectionPool.returnDBConnection(dbconn, serialNumber);
|
783
|
}
|
784
|
|
785
|
}
|
786
|
return result.toArray();
|
787
|
}
|
788
|
|
789
|
/**
|
790
|
* format a structured query as an XML document that conforms
|
791
|
* to the pathquery.dtd and is appropriate for submission to the DBQuery
|
792
|
* structured query engine
|
793
|
*
|
794
|
* @param params The list of parameters that should be included in the query
|
795
|
*/
|
796
|
public static String createSQuery(Hashtable params)
|
797
|
{
|
798
|
StringBuffer query = new StringBuffer();
|
799
|
Enumeration elements;
|
800
|
Enumeration keys;
|
801
|
String filterDoctype = null;
|
802
|
String casesensitive = null;
|
803
|
String searchmode = null;
|
804
|
Object nextkey;
|
805
|
Object nextelement;
|
806
|
//add the xml headers
|
807
|
query.append("<?xml version=\"1.0\"?>\n");
|
808
|
query.append("<pathquery version=\"1.0\">\n");
|
809
|
|
810
|
if (params.containsKey("meta_file_id"))
|
811
|
{
|
812
|
query.append("<meta_file_id>");
|
813
|
query.append( ((String[])params.get("meta_file_id"))[0]);
|
814
|
query.append("</meta_file_id>");
|
815
|
}
|
816
|
|
817
|
if (params.containsKey("returndoctype"))
|
818
|
{
|
819
|
String[] returnDoctypes = ((String[])params.get("returndoctype"));
|
820
|
for(int i=0; i<returnDoctypes.length; i++)
|
821
|
{
|
822
|
String doctype = (String)returnDoctypes[i];
|
823
|
|
824
|
if (!doctype.equals("any") &&
|
825
|
!doctype.equals("ANY") &&
|
826
|
!doctype.equals("") )
|
827
|
{
|
828
|
query.append("<returndoctype>").append(doctype);
|
829
|
query.append("</returndoctype>");
|
830
|
}
|
831
|
}
|
832
|
}
|
833
|
|
834
|
if (params.containsKey("filterdoctype"))
|
835
|
{
|
836
|
String[] filterDoctypes = ((String[])params.get("filterdoctype"));
|
837
|
for(int i=0; i<filterDoctypes.length; i++)
|
838
|
{
|
839
|
query.append("<filterdoctype>").append(filterDoctypes[i]);
|
840
|
query.append("</filterdoctype>");
|
841
|
}
|
842
|
}
|
843
|
|
844
|
if (params.containsKey("returnfield"))
|
845
|
{
|
846
|
String[] returnfield = ((String[])params.get("returnfield"));
|
847
|
for(int i=0; i<returnfield.length; i++)
|
848
|
{
|
849
|
query.append("<returnfield>").append(returnfield[i]);
|
850
|
query.append("</returnfield>");
|
851
|
}
|
852
|
}
|
853
|
|
854
|
if (params.containsKey("owner"))
|
855
|
{
|
856
|
String[] owner = ((String[])params.get("owner"));
|
857
|
for(int i=0; i<owner.length; i++)
|
858
|
{
|
859
|
query.append("<owner>").append(owner[i]);
|
860
|
query.append("</owner>");
|
861
|
}
|
862
|
}
|
863
|
|
864
|
if (params.containsKey("site"))
|
865
|
{
|
866
|
String[] site = ((String[])params.get("site"));
|
867
|
for(int i=0; i<site.length; i++)
|
868
|
{
|
869
|
query.append("<site>").append(site[i]);
|
870
|
query.append("</site>");
|
871
|
}
|
872
|
}
|
873
|
|
874
|
//allows the dynamic switching of boolean operators
|
875
|
if (params.containsKey("operator"))
|
876
|
{
|
877
|
query.append("<querygroup operator=\"" +
|
878
|
((String[])params.get("operator"))[0] + "\">");
|
879
|
}
|
880
|
else
|
881
|
{ //the default operator is UNION
|
882
|
query.append("<querygroup operator=\"UNION\">");
|
883
|
}
|
884
|
|
885
|
if (params.containsKey("casesensitive"))
|
886
|
{
|
887
|
casesensitive = ((String[])params.get("casesensitive"))[0];
|
888
|
}
|
889
|
else
|
890
|
{
|
891
|
casesensitive = "false";
|
892
|
}
|
893
|
|
894
|
if (params.containsKey("searchmode"))
|
895
|
{
|
896
|
searchmode = ((String[])params.get("searchmode"))[0];
|
897
|
}
|
898
|
else
|
899
|
{
|
900
|
searchmode = "contains";
|
901
|
}
|
902
|
|
903
|
//anyfield is a special case because it does a
|
904
|
//free text search. It does not have a <pathexpr>
|
905
|
//tag. This allows for a free text search within the structured
|
906
|
//query. This is useful if the INTERSECT operator is used.
|
907
|
if (params.containsKey("anyfield"))
|
908
|
{
|
909
|
String[] anyfield = ((String[])params.get("anyfield"));
|
910
|
//allow for more than one value for anyfield
|
911
|
for(int i=0; i<anyfield.length; i++)
|
912
|
{
|
913
|
if (!anyfield[i].equals(""))
|
914
|
{
|
915
|
query.append("<queryterm casesensitive=\"" + casesensitive +
|
916
|
"\" " + "searchmode=\"" + searchmode + "\"><value>" +
|
917
|
anyfield[i] +
|
918
|
"</value></queryterm>");
|
919
|
}
|
920
|
}
|
921
|
}
|
922
|
|
923
|
//this while loop finds the rest of the parameters
|
924
|
//and attempts to query for the field specified
|
925
|
//by the parameter.
|
926
|
elements = params.elements();
|
927
|
keys = params.keys();
|
928
|
while(keys.hasMoreElements() && elements.hasMoreElements())
|
929
|
{
|
930
|
nextkey = keys.nextElement();
|
931
|
nextelement = elements.nextElement();
|
932
|
|
933
|
//make sure we aren't querying for any of these
|
934
|
//parameters since the are already in the query
|
935
|
//in one form or another.
|
936
|
if (!nextkey.toString().equals("returndoctype") &&
|
937
|
!nextkey.toString().equals("filterdoctype") &&
|
938
|
!nextkey.toString().equals("action") &&
|
939
|
!nextkey.toString().equals("qformat") &&
|
940
|
!nextkey.toString().equals("anyfield") &&
|
941
|
!nextkey.toString().equals("returnfield") &&
|
942
|
!nextkey.toString().equals("owner") &&
|
943
|
!nextkey.toString().equals("site") &&
|
944
|
!nextkey.toString().equals("operator") )
|
945
|
{
|
946
|
//allow for more than value per field name
|
947
|
for(int i=0; i<((String[])nextelement).length; i++)
|
948
|
{
|
949
|
if (!((String[])nextelement)[i].equals(""))
|
950
|
{
|
951
|
query.append("<queryterm casesensitive=\"" + casesensitive +"\" " +
|
952
|
"searchmode=\"" + searchmode + "\">" +
|
953
|
"<value>" +
|
954
|
//add the query value
|
955
|
((String[])nextelement)[i] +
|
956
|
"</value><pathexpr>" +
|
957
|
//add the path to query by
|
958
|
nextkey.toString() +
|
959
|
"</pathexpr></queryterm>");
|
960
|
}
|
961
|
}
|
962
|
}
|
963
|
}
|
964
|
query.append("</querygroup></pathquery>");
|
965
|
//append on the end of the xml and return the result as a string
|
966
|
return query.toString();
|
967
|
}
|
968
|
|
969
|
/**
|
970
|
* format a simple free-text value query as an XML document that conforms
|
971
|
* to the pathquery.dtd and is appropriate for submission to the DBQuery
|
972
|
* structured query engine
|
973
|
*
|
974
|
* @param value the text string to search for in the xml catalog
|
975
|
* @param doctype the type of documents to include in the result set -- use
|
976
|
* "any" or "ANY" for unfiltered result sets
|
977
|
*/
|
978
|
public static String createQuery(String value, String doctype) {
|
979
|
StringBuffer xmlquery = new StringBuffer();
|
980
|
xmlquery.append("<?xml version=\"1.0\"?>\n");
|
981
|
xmlquery.append("<pathquery version=\"1.0\">");
|
982
|
|
983
|
if (!doctype.equals("any") && !doctype.equals("ANY")) {
|
984
|
xmlquery.append("<returndoctype>");
|
985
|
xmlquery.append(doctype).append("</returndoctype>");
|
986
|
}
|
987
|
|
988
|
xmlquery.append("<querygroup operator=\"UNION\">");
|
989
|
//chad added - 8/14
|
990
|
//the if statement allows a query to gracefully handle a null
|
991
|
//query. Without this if a nullpointerException is thrown.
|
992
|
if (!value.equals(""))
|
993
|
{
|
994
|
xmlquery.append("<queryterm casesensitive=\"false\" ");
|
995
|
xmlquery.append("searchmode=\"contains\">");
|
996
|
xmlquery.append("<value>").append(value).append("</value>");
|
997
|
xmlquery.append("</queryterm>");
|
998
|
}
|
999
|
xmlquery.append("</querygroup>");
|
1000
|
xmlquery.append("</pathquery>");
|
1001
|
|
1002
|
|
1003
|
return (xmlquery.toString());
|
1004
|
}
|
1005
|
|
1006
|
/**
|
1007
|
* format a simple free-text value query as an XML document that conforms
|
1008
|
* to the pathquery.dtd and is appropriate for submission to the DBQuery
|
1009
|
* structured query engine
|
1010
|
*
|
1011
|
* @param value the text string to search for in the xml catalog
|
1012
|
*/
|
1013
|
public static String createQuery(String value) {
|
1014
|
return createQuery(value, "any");
|
1015
|
}
|
1016
|
|
1017
|
/**
|
1018
|
* Check for "READ" permission on @docid for @user and/or @group
|
1019
|
* from DB connection
|
1020
|
*/
|
1021
|
private boolean hasPermission (String user,
|
1022
|
String[] groups, String docid )
|
1023
|
throws SQLException, Exception
|
1024
|
{
|
1025
|
// Check for READ permission on @docid for @user and/or @groups
|
1026
|
PermissionController controller = new PermissionController(docid);
|
1027
|
return controller.hasPermission(user,groups,
|
1028
|
AccessControlInterface.READSTRING);
|
1029
|
}
|
1030
|
|
1031
|
/**
|
1032
|
* Get all docIds list for a data packadge
|
1033
|
* @param dataPackageDocid, the string in docId field of xml_relation table
|
1034
|
*/
|
1035
|
private Vector getCurrentDocidListForDataPackage(String dataPackageDocid)
|
1036
|
{
|
1037
|
DBConnection dbConn = null;
|
1038
|
int serialNumber = -1;
|
1039
|
Vector docIdList=new Vector();//return value
|
1040
|
PreparedStatement pStmt = null;
|
1041
|
ResultSet rs=null;
|
1042
|
String docIdInSubjectField=null;
|
1043
|
String docIdInObjectField=null;
|
1044
|
|
1045
|
// Check the parameter
|
1046
|
if (dataPackageDocid == null || dataPackageDocid.equals(""))
|
1047
|
{
|
1048
|
return docIdList;
|
1049
|
}//if
|
1050
|
|
1051
|
//the query stirng
|
1052
|
String query="SELECT subject, object from xml_relation where docId = ?";
|
1053
|
try
|
1054
|
{
|
1055
|
dbConn=DBConnectionPool.
|
1056
|
getDBConnection("DBQuery.getCurrentDocidListForDataPackage");
|
1057
|
serialNumber=dbConn.getCheckOutSerialNumber();
|
1058
|
pStmt=dbConn.prepareStatement(query);
|
1059
|
//bind the value to query
|
1060
|
pStmt.setString(1, dataPackageDocid);
|
1061
|
|
1062
|
//excute the query
|
1063
|
pStmt.execute();
|
1064
|
//get the result set
|
1065
|
rs=pStmt.getResultSet();
|
1066
|
//process the result
|
1067
|
while (rs.next())
|
1068
|
{
|
1069
|
//In order to get the whole docIds in a data packadge,
|
1070
|
//we need to put the docIds of subject and object field in xml_relation
|
1071
|
//into the return vector
|
1072
|
docIdInSubjectField=rs.getString(1);//the result docId in subject field
|
1073
|
docIdInObjectField=rs.getString(2);//the result docId in object field
|
1074
|
|
1075
|
//don't put the duplicate docId into the vector
|
1076
|
if (!docIdList.contains(docIdInSubjectField))
|
1077
|
{
|
1078
|
docIdList.add(docIdInSubjectField);
|
1079
|
}
|
1080
|
|
1081
|
//don't put the duplicate docId into the vector
|
1082
|
if (!docIdList.contains(docIdInObjectField))
|
1083
|
{
|
1084
|
docIdList.add(docIdInObjectField);
|
1085
|
}
|
1086
|
}//while
|
1087
|
//close the pStmt
|
1088
|
pStmt.close();
|
1089
|
}//try
|
1090
|
catch (SQLException e)
|
1091
|
{
|
1092
|
MetaCatUtil.debugMessage("Error in getDocidListForDataPackage: "
|
1093
|
+e.getMessage(), 30);
|
1094
|
}//catch
|
1095
|
finally
|
1096
|
{
|
1097
|
try
|
1098
|
{
|
1099
|
pStmt.close();
|
1100
|
}//try
|
1101
|
catch (SQLException ee)
|
1102
|
{
|
1103
|
MetaCatUtil.debugMessage("Error in getDocidListForDataPackage: "
|
1104
|
+ee.getMessage(), 30);
|
1105
|
}//catch
|
1106
|
finally
|
1107
|
{
|
1108
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
1109
|
}//fianlly
|
1110
|
}//finally
|
1111
|
return docIdList;
|
1112
|
}//getCurrentDocidListForDataPackadge()
|
1113
|
|
1114
|
/**
|
1115
|
* Get all docIds list for a data packadge
|
1116
|
* @param dataPackageDocid, the string in docId field of xml_relation table
|
1117
|
*/
|
1118
|
private Vector getOldVersionDocidListForDataPackage(String dataPackageDocid)
|
1119
|
{
|
1120
|
|
1121
|
Vector docIdList=new Vector();//return value
|
1122
|
Vector tripleList=null;
|
1123
|
String xml=null;
|
1124
|
|
1125
|
// Check the parameter
|
1126
|
if (dataPackageDocid == null || dataPackageDocid.equals(""))
|
1127
|
{
|
1128
|
return docIdList;
|
1129
|
}//if
|
1130
|
|
1131
|
try
|
1132
|
{
|
1133
|
//initial a documentImpl object
|
1134
|
DocumentImpl packageDocument =
|
1135
|
new DocumentImpl(dataPackageDocid);
|
1136
|
//transfer to documentImpl object to string
|
1137
|
xml=packageDocument.toString();
|
1138
|
|
1139
|
//create a tripcollection object
|
1140
|
TripleCollection tripleForPackage = new
|
1141
|
TripleCollection(new StringReader(xml));
|
1142
|
//get the vetor of triples
|
1143
|
tripleList=tripleForPackage.getCollection();
|
1144
|
|
1145
|
for (int i= 0; i<tripleList.size(); i++)
|
1146
|
{
|
1147
|
//put subject docid into docIdlist without duplicate
|
1148
|
if (!docIdList.contains(((Triple)tripleList.elementAt(i)).getSubject()))
|
1149
|
{
|
1150
|
//put subject docid into docIdlist
|
1151
|
docIdList.add(((Triple)tripleList.get(i)).getSubject());
|
1152
|
}
|
1153
|
//put object docid into docIdlist without duplicate
|
1154
|
if (!docIdList.contains(((Triple)tripleList.elementAt(i)).getObject()))
|
1155
|
{
|
1156
|
docIdList.add(((Triple)(tripleList.get(i))).getObject());
|
1157
|
}
|
1158
|
}//for
|
1159
|
}//try
|
1160
|
catch (Exception e)
|
1161
|
{
|
1162
|
MetaCatUtil.debugMessage("Error in getOldVersionAllDocumentImpl: "
|
1163
|
+e.getMessage(), 30);
|
1164
|
}//catch
|
1165
|
|
1166
|
// return result
|
1167
|
return docIdList;
|
1168
|
}//getDocidListForPackageInXMLRevisions()
|
1169
|
|
1170
|
/**
|
1171
|
* Check if the docId is a data packadge id. If the id is a data packadage
|
1172
|
*id, it should be store in the docId fields in xml_relation table.
|
1173
|
*So we can use a query to get the entries which the docId equals the given
|
1174
|
*value. If the result is null. The docId is not a packadge id. Otherwise,
|
1175
|
* it is.
|
1176
|
* @param docId, the id need to be checked
|
1177
|
*/
|
1178
|
private boolean isDataPackageId(String docId)
|
1179
|
{
|
1180
|
boolean result=false;
|
1181
|
PreparedStatement pStmt = null;
|
1182
|
ResultSet rs=null;
|
1183
|
String query="SELECT docId from xml_relation where docId = ?";
|
1184
|
DBConnection dbConn = null;
|
1185
|
int serialNumber = -1;
|
1186
|
try
|
1187
|
{
|
1188
|
dbConn=DBConnectionPool.
|
1189
|
getDBConnection("DBQuery.isDataPackageId");
|
1190
|
serialNumber=dbConn.getCheckOutSerialNumber();
|
1191
|
pStmt=dbConn.prepareStatement(query);
|
1192
|
//bind the value to query
|
1193
|
pStmt.setString(1, docId);
|
1194
|
//execute the query
|
1195
|
pStmt.execute();
|
1196
|
rs=pStmt.getResultSet();
|
1197
|
//process the result
|
1198
|
if (rs.next()) //There are some records for the id in docId fields
|
1199
|
{
|
1200
|
result=true;//It is a data packadge id
|
1201
|
}
|
1202
|
pStmt.close();
|
1203
|
}//try
|
1204
|
catch (SQLException e)
|
1205
|
{
|
1206
|
util.debugMessage("Error in isDataPackageId: "
|
1207
|
+e.getMessage(), 30);
|
1208
|
}
|
1209
|
finally
|
1210
|
{
|
1211
|
try
|
1212
|
{
|
1213
|
pStmt.close();
|
1214
|
}//try
|
1215
|
catch (SQLException ee)
|
1216
|
{
|
1217
|
MetaCatUtil.debugMessage("Error in isDataPackageId: "
|
1218
|
+ ee.getMessage(), 30);
|
1219
|
}//catch
|
1220
|
finally
|
1221
|
{
|
1222
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
1223
|
}//finally
|
1224
|
}//finally
|
1225
|
return result;
|
1226
|
}//isDataPackageId()
|
1227
|
|
1228
|
/**
|
1229
|
* Check if the user has the permission to export data package
|
1230
|
* @param conn, the connection
|
1231
|
* @param docId, the id need to be checked
|
1232
|
* @param user, the name of user
|
1233
|
* @param groups, the user's group
|
1234
|
*/
|
1235
|
private boolean hasPermissionToExportPackage(String docId,
|
1236
|
String user, String[] groups)
|
1237
|
throws Exception
|
1238
|
{
|
1239
|
//DocumentImpl doc=new DocumentImpl(conn,docId);
|
1240
|
return DocumentImpl.hasReadPermission(user, groups,docId);
|
1241
|
}
|
1242
|
|
1243
|
/**
|
1244
|
*Get the current Rev for a docid in xml_documents table
|
1245
|
* @param docId, the id need to get version numb
|
1246
|
* If the return value is -5, means no value in rev field for this docid
|
1247
|
*/
|
1248
|
private int getCurrentRevFromXMLDoumentsTable(String docId)
|
1249
|
throws SQLException
|
1250
|
{
|
1251
|
int rev=-5;
|
1252
|
PreparedStatement pStmt = null;
|
1253
|
ResultSet rs=null;
|
1254
|
String query="SELECT rev from xml_documents where docId = ?";
|
1255
|
DBConnection dbConn=null;
|
1256
|
int serialNumber = -1;
|
1257
|
try
|
1258
|
{
|
1259
|
dbConn=DBConnectionPool.
|
1260
|
getDBConnection("DBQuery.getCurrentRevFromXMLDocumentsTable");
|
1261
|
serialNumber=dbConn.getCheckOutSerialNumber();
|
1262
|
pStmt=dbConn.prepareStatement(query);
|
1263
|
//bind the value to query
|
1264
|
pStmt.setString(1, docId);
|
1265
|
//execute the query
|
1266
|
pStmt.execute();
|
1267
|
rs=pStmt.getResultSet();
|
1268
|
//process the result
|
1269
|
if (rs.next()) //There are some records for rev
|
1270
|
{
|
1271
|
rev=rs.getInt(1);;//It is the version for given docid
|
1272
|
}
|
1273
|
else
|
1274
|
{
|
1275
|
rev=-5;
|
1276
|
}
|
1277
|
|
1278
|
}//try
|
1279
|
catch (SQLException e)
|
1280
|
{
|
1281
|
MetaCatUtil.debugMessage("Error in getCurrentRevFromXMLDoumentsTable: "
|
1282
|
+e.getMessage(), 30);
|
1283
|
throw e;
|
1284
|
}//catch
|
1285
|
finally
|
1286
|
{
|
1287
|
try
|
1288
|
{
|
1289
|
pStmt.close();
|
1290
|
}//try
|
1291
|
catch (SQLException ee)
|
1292
|
{
|
1293
|
MetaCatUtil.debugMessage("Error in getCurrentRevFromXMLDoumentsTable: "
|
1294
|
+ee.getMessage(), 30);
|
1295
|
}//catch
|
1296
|
finally
|
1297
|
{
|
1298
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
1299
|
}//finally
|
1300
|
}//finally
|
1301
|
return rev;
|
1302
|
}//getCurrentRevFromXMLDoumentsTable
|
1303
|
|
1304
|
/**
|
1305
|
*put a doc into a zip output stream
|
1306
|
*@param docImpl, docmentImpl object which will be sent to zip output stream
|
1307
|
*@param zipOut, zip output stream which the docImpl will be put
|
1308
|
*@param packageZipEntry, the zip entry name for whole package
|
1309
|
*/
|
1310
|
private void addDocToZipOutputStream(DocumentImpl docImpl,
|
1311
|
ZipOutputStream zipOut, String packageZipEntry)
|
1312
|
throws ClassNotFoundException, IOException, SQLException,
|
1313
|
McdbException, Exception
|
1314
|
{
|
1315
|
byte[] byteString = null;
|
1316
|
ZipEntry zEntry = null;
|
1317
|
|
1318
|
byteString = docImpl.toString().getBytes();
|
1319
|
//use docId as the zip entry's name
|
1320
|
zEntry = new ZipEntry(packageZipEntry+"/metadata/"+docImpl.getDocID());
|
1321
|
zEntry.setSize(byteString.length);
|
1322
|
zipOut.putNextEntry(zEntry);
|
1323
|
zipOut.write(byteString, 0, byteString.length);
|
1324
|
zipOut.closeEntry();
|
1325
|
|
1326
|
}//addDocToZipOutputStream()
|
1327
|
|
1328
|
|
1329
|
/**
|
1330
|
* Transfer a docid vetor to a documentImpl vector. The documentImpl vetor
|
1331
|
* only inlcudes current version. If a DocumentImple object
|
1332
|
* couldn't find for a docid, then the String of this docid was added to vetor
|
1333
|
* rather than DocumentImple object.
|
1334
|
* @param docIdList, a vetor hold a docid list for a data package. In docid,
|
1335
|
* there is not version number in it.
|
1336
|
*/
|
1337
|
|
1338
|
private Vector getCurrentAllDocumentImpl( Vector docIdList)
|
1339
|
throws McdbException,Exception
|
1340
|
{
|
1341
|
//Connection dbConn=null;
|
1342
|
Vector documentImplList=new Vector();
|
1343
|
int rev=0;
|
1344
|
|
1345
|
// Check the parameter
|
1346
|
if (docIdList.isEmpty())
|
1347
|
{
|
1348
|
return documentImplList;
|
1349
|
}//if
|
1350
|
|
1351
|
//for every docid in vector
|
1352
|
for (int i=0;i<docIdList.size();i++)
|
1353
|
{
|
1354
|
try
|
1355
|
{
|
1356
|
//get newest version for this docId
|
1357
|
rev=getCurrentRevFromXMLDoumentsTable((String)docIdList.elementAt(i));
|
1358
|
|
1359
|
// There is no record for this docId in xml_documents table
|
1360
|
if (rev ==-5)
|
1361
|
{
|
1362
|
// Rather than put DocumentImple object, put a String Object(docid)
|
1363
|
// into the documentImplList
|
1364
|
documentImplList.add((String)docIdList.elementAt(i));
|
1365
|
// Skip other code
|
1366
|
continue;
|
1367
|
}
|
1368
|
|
1369
|
String docidPlusVersion=((String)docIdList.elementAt(i))
|
1370
|
+util.getOption("accNumSeparator")+rev;
|
1371
|
|
1372
|
|
1373
|
//create new documentImpl object
|
1374
|
DocumentImpl documentImplObject =
|
1375
|
new DocumentImpl(docidPlusVersion);
|
1376
|
//add them to vector
|
1377
|
documentImplList.add(documentImplObject);
|
1378
|
}//try
|
1379
|
catch (Exception e)
|
1380
|
{
|
1381
|
MetaCatUtil.debugMessage("Error in getCurrentAllDocumentImpl: "
|
1382
|
+e.getMessage(), 30);
|
1383
|
// continue the for loop
|
1384
|
continue;
|
1385
|
}
|
1386
|
}//for
|
1387
|
return documentImplList;
|
1388
|
}
|
1389
|
|
1390
|
/**
|
1391
|
* Transfer a docid vetor to a documentImpl vector. If a DocumentImple object
|
1392
|
* couldn't find for a docid, then the String of this docid was added to vetor
|
1393
|
* rather than DocumentImple object.
|
1394
|
* @param docIdList, a vetor hold a docid list for a data package. In docid,
|
1395
|
*t here is version number in it.
|
1396
|
*/
|
1397
|
private Vector getOldVersionAllDocumentImpl( Vector docIdList)
|
1398
|
{
|
1399
|
//Connection dbConn=null;
|
1400
|
Vector documentImplList=new Vector();
|
1401
|
String siteCode=null;
|
1402
|
String uniqueId=null;
|
1403
|
int rev=0;
|
1404
|
|
1405
|
// Check the parameter
|
1406
|
if (docIdList.isEmpty())
|
1407
|
{
|
1408
|
return documentImplList;
|
1409
|
}//if
|
1410
|
|
1411
|
//for every docid in vector
|
1412
|
for (int i=0;i<docIdList.size();i++)
|
1413
|
{
|
1414
|
|
1415
|
String docidPlusVersion=(String)(docIdList.elementAt(i));
|
1416
|
|
1417
|
try
|
1418
|
{
|
1419
|
//create new documentImpl object
|
1420
|
DocumentImpl documentImplObject =
|
1421
|
new DocumentImpl(docidPlusVersion);
|
1422
|
//add them to vector
|
1423
|
documentImplList.add(documentImplObject);
|
1424
|
}//try
|
1425
|
catch (McdbDocNotFoundException notFoundE)
|
1426
|
{
|
1427
|
MetaCatUtil.debugMessage("Error in DBQuery.getOldVersionAllDocument"+
|
1428
|
"Imple" + notFoundE.getMessage(), 30);
|
1429
|
// Rather than add a DocumentImple object into vetor, a String object
|
1430
|
// - the doicd was added to the vector
|
1431
|
documentImplList.add(docidPlusVersion);
|
1432
|
// Continue the for loop
|
1433
|
continue;
|
1434
|
}//catch
|
1435
|
catch (Exception e)
|
1436
|
{
|
1437
|
MetaCatUtil.debugMessage("Error in DBQuery.getOldVersionAllDocument"+
|
1438
|
"Imple" + e.getMessage(), 30);
|
1439
|
// Continue the for loop
|
1440
|
continue;
|
1441
|
}//catch
|
1442
|
|
1443
|
|
1444
|
}//for
|
1445
|
return documentImplList;
|
1446
|
}//getOldVersionAllDocumentImple
|
1447
|
|
1448
|
/**
|
1449
|
*put a data file into a zip output stream
|
1450
|
*@param docImpl, docmentImpl object which will be sent to zip output stream
|
1451
|
*@param zipOut, the zip output stream which the docImpl will be put
|
1452
|
*@param packageZipEntry, the zip entry name for whole package
|
1453
|
*/
|
1454
|
private void addDataFileToZipOutputStream(DocumentImpl docImpl,
|
1455
|
ZipOutputStream zipOut, String packageZipEntry)
|
1456
|
throws ClassNotFoundException, IOException, SQLException,
|
1457
|
McdbException, Exception
|
1458
|
{
|
1459
|
byte[] byteString = null;
|
1460
|
ZipEntry zEntry = null;
|
1461
|
// this is data file; add file to zip
|
1462
|
String filePath = util.getOption("datafilepath");
|
1463
|
if (!filePath.endsWith("/"))
|
1464
|
{
|
1465
|
filePath += "/";
|
1466
|
}
|
1467
|
String fileName = filePath + docImpl.getDocID();
|
1468
|
zEntry = new ZipEntry(packageZipEntry+"/data/"+docImpl.getDocID());
|
1469
|
zipOut.putNextEntry(zEntry);
|
1470
|
FileInputStream fin = null;
|
1471
|
try
|
1472
|
{
|
1473
|
fin = new FileInputStream(fileName);
|
1474
|
byte[] buf = new byte[4 * 1024]; // 4K buffer
|
1475
|
int b = fin.read(buf);
|
1476
|
while (b != -1)
|
1477
|
{
|
1478
|
zipOut.write(buf, 0, b);
|
1479
|
b = fin.read(buf);
|
1480
|
}//while
|
1481
|
zipOut.closeEntry();
|
1482
|
}//try
|
1483
|
catch (IOException ioe)
|
1484
|
{
|
1485
|
util.debugMessage("There is an exception: "+ioe.getMessage(), 30);
|
1486
|
}//catch
|
1487
|
}//addDataFileToZipOutputStream()
|
1488
|
|
1489
|
/**
|
1490
|
*create a html summary for data package and put it into zip output stream
|
1491
|
*@param docImplList, the documentImpl ojbects in data package
|
1492
|
*@param zipOut, the zip output stream which the html should be put
|
1493
|
*@param packageZipEntry, the zip entry name for whole package
|
1494
|
*/
|
1495
|
private void addHtmlSummaryToZipOutputStream(Vector docImplList,
|
1496
|
ZipOutputStream zipOut, String packageZipEntry)
|
1497
|
throws Exception
|
1498
|
{
|
1499
|
StringBuffer htmlDoc = new StringBuffer();
|
1500
|
ZipEntry zEntry = null;
|
1501
|
byte[] byteString=null;
|
1502
|
InputStream source;
|
1503
|
DBTransform xmlToHtml;
|
1504
|
|
1505
|
//create a DBTransform ojbect
|
1506
|
xmlToHtml = new DBTransform();
|
1507
|
//head of html
|
1508
|
htmlDoc.append("<html><head></head><body>");
|
1509
|
for (int i=0; i<docImplList.size(); i++)
|
1510
|
{
|
1511
|
// If this String object, this means it is missed data file
|
1512
|
if ((((docImplList.elementAt(i)).getClass()).toString())
|
1513
|
.equals("class java.lang.String"))
|
1514
|
{
|
1515
|
|
1516
|
htmlDoc.append("<a href=\"");
|
1517
|
String dataFileid =(String)docImplList.elementAt(i);
|
1518
|
htmlDoc.append("./data/").append(dataFileid).append("\">");
|
1519
|
htmlDoc.append("Data File: ");
|
1520
|
htmlDoc.append(dataFileid).append("</a><br>");
|
1521
|
htmlDoc.append("<br><hr><br>");
|
1522
|
|
1523
|
}//if
|
1524
|
else if ((((DocumentImpl)docImplList.elementAt(i)).getDoctype()).
|
1525
|
compareTo("BIN")!=0)
|
1526
|
{ //this is an xml file so we can transform it.
|
1527
|
//transform each file individually then concatenate all of the
|
1528
|
//transformations together.
|
1529
|
|
1530
|
//for metadata xml title
|
1531
|
htmlDoc.append("<h2>");
|
1532
|
htmlDoc.append(((DocumentImpl)docImplList.elementAt(i)).getDocID());
|
1533
|
//htmlDoc.append(".");
|
1534
|
//htmlDoc.append(((DocumentImpl)docImplList.elementAt(i)).getRev());
|
1535
|
htmlDoc.append("</h2>");
|
1536
|
//do the actual transform
|
1537
|
StringWriter docString = new StringWriter();
|
1538
|
xmlToHtml.transformXMLDocument(
|
1539
|
((DocumentImpl)docImplList.elementAt(i)).toString(),
|
1540
|
"-//NCEAS//eml-generic//EN", "-//W3C//HTML//EN", "html", docString);
|
1541
|
htmlDoc.append(docString.toString());
|
1542
|
htmlDoc.append("<br><br><hr><br><br>");
|
1543
|
}//if
|
1544
|
else
|
1545
|
{ //this is a data file so we should link to it in the html
|
1546
|
htmlDoc.append("<a href=\"");
|
1547
|
String dataFileid =((DocumentImpl)docImplList.elementAt(i)).getDocID();
|
1548
|
htmlDoc.append("./data/").append(dataFileid).append("\">");
|
1549
|
htmlDoc.append("Data File: ");
|
1550
|
htmlDoc.append(dataFileid).append("</a><br>");
|
1551
|
htmlDoc.append("<br><hr><br>");
|
1552
|
}//else
|
1553
|
}//for
|
1554
|
htmlDoc.append("</body></html>");
|
1555
|
byteString = htmlDoc.toString().getBytes();
|
1556
|
zEntry = new ZipEntry(packageZipEntry+"/metadata.html");
|
1557
|
zEntry.setSize(byteString.length);
|
1558
|
zipOut.putNextEntry(zEntry);
|
1559
|
zipOut.write(byteString, 0, byteString.length);
|
1560
|
zipOut.closeEntry();
|
1561
|
//dbConn.close();
|
1562
|
|
1563
|
}//addHtmlSummaryToZipOutputStream
|
1564
|
|
1565
|
|
1566
|
|
1567
|
/**
|
1568
|
* put a data packadge into a zip output stream
|
1569
|
* @param docId, which the user want to put into zip output stream
|
1570
|
* @param out, a servletoutput stream which the zip output stream will be put
|
1571
|
* @param user, the username of the user
|
1572
|
* @param groups, the group of the user
|
1573
|
*/
|
1574
|
public ZipOutputStream getZippedPackage(String docIdString,
|
1575
|
ServletOutputStream out, String user, String[] groups, String passWord)
|
1576
|
throws ClassNotFoundException, IOException, SQLException,
|
1577
|
McdbException, NumberFormatException, Exception
|
1578
|
{
|
1579
|
ZipOutputStream zOut = null;
|
1580
|
String elementDocid=null;
|
1581
|
DocumentImpl docImpls=null;
|
1582
|
//Connection dbConn = null;
|
1583
|
Vector docIdList=new Vector();
|
1584
|
Vector documentImplList=new Vector();
|
1585
|
Vector htmlDocumentImplList=new Vector();
|
1586
|
String packageId=null;
|
1587
|
String rootName="package";//the package zip entry name
|
1588
|
|
1589
|
String docId=null;
|
1590
|
int version=-5;
|
1591
|
// Docid without revision
|
1592
|
docId=MetaCatUtil.getDocIdFromString(docIdString);
|
1593
|
// revision number
|
1594
|
version=MetaCatUtil.getVersionFromString(docIdString);
|
1595
|
|
1596
|
//check if the reqused docId is a data package id
|
1597
|
if (!isDataPackageId(docId))
|
1598
|
{
|
1599
|
|
1600
|
/*Exception e = new Exception("The request the doc id " +docIdString+
|
1601
|
" is not a data package id");
|
1602
|
throw e;*/
|
1603
|
|
1604
|
|
1605
|
//CB 1/6/03: if the requested docid is not a datapackage, we just zip
|
1606
|
//up the single document and return the zip file.
|
1607
|
|
1608
|
if(!hasPermissionToExportPackage(docId, user, groups))
|
1609
|
{
|
1610
|
|
1611
|
Exception e = new Exception("User " + user + " does not have permission"
|
1612
|
+" to export the data package " + docIdString);
|
1613
|
throw e;
|
1614
|
}
|
1615
|
|
1616
|
docImpls=new DocumentImpl(docId);
|
1617
|
//checking if the user has the permission to read the documents
|
1618
|
if (docImpls.hasReadPermission(user,groups,docImpls.getDocID()))
|
1619
|
{
|
1620
|
zOut = new ZipOutputStream(out);
|
1621
|
//if the docImpls is metadata
|
1622
|
if ((docImpls.getDoctype()).compareTo("BIN")!=0)
|
1623
|
{
|
1624
|
//add metadata into zip output stream
|
1625
|
addDocToZipOutputStream(docImpls, zOut, rootName);
|
1626
|
}//if
|
1627
|
else
|
1628
|
{
|
1629
|
//it is data file
|
1630
|
addDataFileToZipOutputStream(docImpls, zOut, rootName);
|
1631
|
htmlDocumentImplList.add(docImpls);
|
1632
|
}//else
|
1633
|
}//if
|
1634
|
|
1635
|
zOut.finish(); //terminate the zip file
|
1636
|
return zOut;
|
1637
|
}
|
1638
|
// Check the permission of user
|
1639
|
else if(!hasPermissionToExportPackage(docId, user, groups))
|
1640
|
{
|
1641
|
|
1642
|
Exception e = new Exception("User " + user + " does not have permission"
|
1643
|
+" to export the data package " + docIdString);
|
1644
|
throw e;
|
1645
|
}
|
1646
|
else //it is a packadge id
|
1647
|
{
|
1648
|
//store the package id
|
1649
|
packageId=docId;
|
1650
|
//get current version in database
|
1651
|
int currentVersion = getCurrentRevFromXMLDoumentsTable(packageId);
|
1652
|
//If it is for current version (-1 means user didn't specify revision)
|
1653
|
if ((version ==-1)||version==currentVersion)
|
1654
|
{
|
1655
|
//get current version number
|
1656
|
version=currentVersion;
|
1657
|
//get package zip entry name
|
1658
|
//it should be docId.revsion.package
|
1659
|
rootName=packageId+util.getOption("accNumSeparator")+version+
|
1660
|
util.getOption("accNumSeparator")+"package";
|
1661
|
//get the whole id list for data packadge
|
1662
|
docIdList=getCurrentDocidListForDataPackage(packageId);
|
1663
|
//get the whole documentImple object
|
1664
|
documentImplList=getCurrentAllDocumentImpl(docIdList);
|
1665
|
|
1666
|
}//if
|
1667
|
else if (version > currentVersion || version < -1)
|
1668
|
{
|
1669
|
throw new Exception ("The user specified docid: "+docId+"."+version
|
1670
|
+" doesn't exist");
|
1671
|
}//else if
|
1672
|
else //for an old version
|
1673
|
{
|
1674
|
|
1675
|
rootName=docIdString+util.getOption("accNumSeparator")+"package";
|
1676
|
//get the whole id list for data packadge
|
1677
|
docIdList=getOldVersionDocidListForDataPackage(docIdString);
|
1678
|
|
1679
|
//get the whole documentImple object
|
1680
|
documentImplList=getOldVersionAllDocumentImpl(docIdList);
|
1681
|
}//else
|
1682
|
|
1683
|
// Make sure documentImplist is not empty
|
1684
|
if (documentImplList.isEmpty())
|
1685
|
{
|
1686
|
throw new Exception ("Couldn't find component for data package: "
|
1687
|
+ packageId);
|
1688
|
}//if
|
1689
|
|
1690
|
|
1691
|
zOut = new ZipOutputStream(out);
|
1692
|
//put every element into zip output stream
|
1693
|
for (int i=0; i < documentImplList.size(); i++ )
|
1694
|
{
|
1695
|
// if the object in the vetor is String, this means we couldn't find
|
1696
|
// the document locally, we need find it remote
|
1697
|
if ((((documentImplList.elementAt(i)).getClass()).toString())
|
1698
|
.equals("class java.lang.String"))
|
1699
|
{
|
1700
|
// Get String object from vetor
|
1701
|
String documentId = (String) documentImplList.elementAt(i);
|
1702
|
MetaCatUtil.debugMessage("docid: "+documentId, 30);
|
1703
|
// Get doicd without revision
|
1704
|
String docidWithoutRevision =
|
1705
|
MetaCatUtil.getDocIdFromString(documentId);
|
1706
|
MetaCatUtil.debugMessage("docidWithoutRevsion: "
|
1707
|
+docidWithoutRevision, 30);
|
1708
|
// Get revision
|
1709
|
String revision = MetaCatUtil.getRevisionStringFromString(documentId);
|
1710
|
MetaCatUtil.debugMessage("revsion from docIdentifier: "+revision, 30);
|
1711
|
// Zip entry string
|
1712
|
String zipEntryPath = rootName+"/data/";
|
1713
|
// Create a RemoteDocument object
|
1714
|
RemoteDocument remoteDoc =
|
1715
|
new RemoteDocument(docidWithoutRevision,revision,user,
|
1716
|
passWord, zipEntryPath);
|
1717
|
// Here we only read data file from remote metacat
|
1718
|
String docType = remoteDoc.getDocType();
|
1719
|
if (docType!=null)
|
1720
|
{
|
1721
|
if (docType.equals("BIN"))
|
1722
|
{
|
1723
|
// Put remote document to zip output
|
1724
|
remoteDoc.readDocumentFromRemoteServerByZip(zOut);
|
1725
|
// Add String object to htmlDocumentImplList
|
1726
|
String elementInHtmlList = remoteDoc.getDocIdWithoutRevsion()+
|
1727
|
MetaCatUtil.getOption("accNumSeparator")+remoteDoc.getRevision();
|
1728
|
htmlDocumentImplList.add(elementInHtmlList);
|
1729
|
}//if
|
1730
|
}//if
|
1731
|
|
1732
|
}//if
|
1733
|
else
|
1734
|
{
|
1735
|
//create a docmentImpls object (represent xml doc) base on the docId
|
1736
|
docImpls=(DocumentImpl)documentImplList.elementAt(i);
|
1737
|
//checking if the user has the permission to read the documents
|
1738
|
if (docImpls.hasReadPermission(user,groups,docImpls.getDocID()))
|
1739
|
{
|
1740
|
//if the docImpls is metadata
|
1741
|
if ((docImpls.getDoctype()).compareTo("BIN")!=0)
|
1742
|
{
|
1743
|
//add metadata into zip output stream
|
1744
|
addDocToZipOutputStream(docImpls, zOut, rootName);
|
1745
|
//add the documentImpl into the vetor which will be used in html
|
1746
|
htmlDocumentImplList.add(docImpls);
|
1747
|
|
1748
|
}//if
|
1749
|
else
|
1750
|
{
|
1751
|
//it is data file
|
1752
|
addDataFileToZipOutputStream(docImpls, zOut, rootName);
|
1753
|
htmlDocumentImplList.add(docImpls);
|
1754
|
}//else
|
1755
|
}//if
|
1756
|
}//else
|
1757
|
}//for
|
1758
|
|
1759
|
//add html summary file
|
1760
|
addHtmlSummaryToZipOutputStream(htmlDocumentImplList, zOut, rootName);
|
1761
|
zOut.finish(); //terminate the zip file
|
1762
|
//dbConn.close();
|
1763
|
return zOut;
|
1764
|
}//else
|
1765
|
}//getZippedPackage()
|
1766
|
|
1767
|
private class ReturnFieldValue
|
1768
|
{
|
1769
|
private String docid = null; //return field value for this docid
|
1770
|
private String fieldValue = null;
|
1771
|
private String xmlFieldValue = null; //return field value in xml format
|
1772
|
|
1773
|
|
1774
|
public void setDocid(String myDocid)
|
1775
|
{
|
1776
|
docid = myDocid;
|
1777
|
}
|
1778
|
|
1779
|
public String getDocid()
|
1780
|
{
|
1781
|
return docid;
|
1782
|
}
|
1783
|
|
1784
|
public void setFieldValue(String myValue)
|
1785
|
{
|
1786
|
fieldValue = myValue;
|
1787
|
}
|
1788
|
|
1789
|
public String getFieldValue()
|
1790
|
{
|
1791
|
return fieldValue;
|
1792
|
}
|
1793
|
|
1794
|
public void setXMLFieldValue(String xml)
|
1795
|
{
|
1796
|
xmlFieldValue = xml;
|
1797
|
}
|
1798
|
|
1799
|
public String getXMLFieldValue()
|
1800
|
{
|
1801
|
return xmlFieldValue;
|
1802
|
}
|
1803
|
|
1804
|
|
1805
|
}
|
1806
|
|
1807
|
}
|