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/**
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* '$RCSfile$'
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* Purpose: A Class that implements a metadata catalog as a java Servlet
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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, Dan Higgins, Jivka Bojilova, Chad Berkley
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* Release: @release@
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*
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* '$Author: jones $'
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* '$Date: 2004-04-02 13:43:51 -0800 (Fri, 02 Apr 2004) $'
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* '$Revision: 2102 $'
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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 java.io.BufferedInputStream;
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import java.io.File;
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import java.io.FileInputStream;
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import java.io.IOException;
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import java.io.PrintWriter;
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import java.io.StringReader;
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import java.net.MalformedURLException;
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import java.net.URL;
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import java.sql.PreparedStatement;
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import java.sql.ResultSet;
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import java.sql.SQLException;
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import java.util.Enumeration;
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import java.util.Hashtable;
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import java.util.PropertyResourceBundle;
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import java.util.Vector;
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import java.util.zip.ZipEntry;
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import java.util.zip.ZipOutputStream;
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import javax.servlet.ServletConfig;
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import javax.servlet.ServletContext;
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import javax.servlet.ServletException;
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import javax.servlet.ServletOutputStream;
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import javax.servlet.http.HttpServlet;
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import javax.servlet.http.HttpServletRequest;
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import javax.servlet.http.HttpServletResponse;
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import javax.servlet.http.HttpSession;
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import edu.ucsb.nceas.utilities.Options;
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import org.ecoinformatics.eml.EMLParser;
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import com.oreilly.servlet.multipart.FilePart;
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import com.oreilly.servlet.multipart.MultipartParser;
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import com.oreilly.servlet.multipart.ParamPart;
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import com.oreilly.servlet.multipart.Part;
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/**
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* A metadata catalog server implemented as a Java Servlet
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*
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* <p>
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* Valid parameters are: <br>
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* action=query -- query the values of all elements and attributes and return a
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* result set of nodes <br>
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* action=squery -- structured query (see pathquery.dtd) <br>
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* action= -- export a zip format for data packadge <br>
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* action=read -- read any metadata/data file from Metacat and from Internet
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* <br>
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* action=insert -- insert an XML document into the database store <br>
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* action=update -- update an XML document that is in the database store <br>
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* action=delete -- delete an XML document from the database store <br>
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* action=validate -- vallidate the xml contained in valtext <br>
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* doctype -- document type list returned by the query (publicID) <br>
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* qformat=xml -- display resultset from query in XML <br>
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* qformat=html -- display resultset from query in HTML <br>
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* qformat=zip -- zip resultset from query <br>
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* docid=34 -- display the document with the document ID number 34 <br>
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* doctext -- XML text of the document to load into the database <br>
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* acltext -- XML access text for a document to load into the database <br>
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* dtdtext -- XML DTD text for a new DTD to load into Metacat XML Catalog <br>
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* query -- actual query text (to go with 'action=query' or 'action=squery')
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* <br>
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* valtext -- XML text to be validated <br>
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* action=getaccesscontrol -- retrieve acl info for Metacat document <br>
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* action=getdoctypes -- retrieve all doctypes (publicID) <br>
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* action=getdtdschema -- retrieve a DTD or Schema file <br>
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* action=getdataguide -- retrieve a Data Guide <br>
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* action=getprincipals -- retrieve a list of principals in XML <br>
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* datadoc -- data document name (id) <br>
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* <p>
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* The particular combination of parameters that are valid for each particular
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* action value is quite specific. This documentation will be reorganized to
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* reflect this information.
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*/
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public class MetaCatServlet extends HttpServlet
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{
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private ServletConfig config = null;
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private ServletContext context = null;
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private String resultStyleURL = null;
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private String xmlcatalogfile = null;
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private String saxparser = null;
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private String datafilepath = null;
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private File dataDirectory = null;
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private String servletpath = null;
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private String htmlpath = null;
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private PropertyResourceBundle options = null;
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private MetaCatUtil util = null;
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private DBConnectionPool connPool = null;
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private Hashtable sessionHash = new Hashtable();
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private static final String PROLOG = "<?xml version=\"1.0\"?>";
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private static final String SUCCESS = "<success>";
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private static final String SUCCESSCLOSE = "</success>";
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private static final String ERROR = "<error>";
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private static final String ERRORCLOSE = "</error>";
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public static final String SCHEMALOCATIONKEYWORD = ":schemaLocation";
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public static final String NONAMESPACELOCATION = ":noNamespaceSchemaLocation";
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public static final String EML2KEYWORD = ":eml";
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public static final String XMLFORMAT = "xml";
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private static final String CONFIG_DIR = "WEB-INF";
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private static final String CONFIG_NAME = "metacat.properties";
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/**
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* Initialize the servlet by creating appropriate database connections
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*/
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public void init(ServletConfig config) throws ServletException
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{
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try {
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super.init(config);
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this.config = config;
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this.context = config.getServletContext();
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// Initialize the properties file for our options
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String dirPath = context.getRealPath(CONFIG_DIR);
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File propertyFile = new File(dirPath, CONFIG_NAME);
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Options options = null;
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try {
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options = Options.initialize(propertyFile);
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MetaCatUtil.debugMessage("Options configured: "
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+ options.getOption("configured"), 20);
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} catch (IOException ioe) {
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MetaCatUtil.debugMessage("Error in loading options: "
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+ ioe.getMessage(), 20);
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}
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util = new MetaCatUtil();
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//initial DBConnection pool
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connPool = DBConnectionPool.getInstance();
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// Get the configuration file information
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resultStyleURL = MetaCatUtil.getOption("resultStyleURL");
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xmlcatalogfile = MetaCatUtil.getOption("xmlcatalogfile");
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saxparser = MetaCatUtil.getOption("saxparser");
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datafilepath = MetaCatUtil.getOption("datafilepath");
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dataDirectory = new File(datafilepath);
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servletpath = MetaCatUtil.getOption("servletpath");
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htmlpath = MetaCatUtil.getOption("htmlpath");
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System.out.println("Metacat (" + Version.getVersion()
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+ ") initialized.");
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} catch (ServletException ex) {
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throw ex;
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} catch (SQLException e) {
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MetaCatUtil.debugMessage("Error in MetacatServlet.init: "
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+ e.getMessage(), 20);
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}
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}
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/**
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* Close all db connections from the pool
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*/
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public void destroy()
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{
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// Close all db connection
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System.out.println("Destroying MetacatServlet");
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connPool.release();
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}
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/** Handle "GET" method requests from HTTP clients */
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public void doGet(HttpServletRequest request, HttpServletResponse response)
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throws ServletException, IOException
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{
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215
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// Process the data and send back the response
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handleGetOrPost(request, response);
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}
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220
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/** Handle "POST" method requests from HTTP clients */
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public void doPost(HttpServletRequest request, HttpServletResponse response)
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throws ServletException, IOException
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{
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// Process the data and send back the response
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handleGetOrPost(request, response);
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}
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229
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/**
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230
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* Control servlet response depending on the action parameter specified
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*/
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232
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private void handleGetOrPost(HttpServletRequest request,
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HttpServletResponse response) throws ServletException, IOException
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234
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{
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235
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236
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if (util == null) {
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util = new MetaCatUtil();
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238
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}
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239
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/*
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240
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* MetaCatUtil.debugMessage("Connection pool size: "
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241
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* +connPool.getSizeOfDBConnectionPool(),10);
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242
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* MetaCatUtil.debugMessage("Free DBConnection number: "
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*/
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244
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//If all DBConnection in the pool are free and DBConnection pool
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245
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//size is greater than initial value, shrink the connection pool
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246
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//size to initial value
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247
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DBConnectionPool.shrinkDBConnectionPoolSize();
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248
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249
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//Debug message to print out the method which have a busy DBConnection
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250
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connPool.printMethodNameHavingBusyDBConnection();
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251
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252
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String ctype = request.getContentType();
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253
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if (ctype != null && ctype.startsWith("multipart/form-data")) {
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254
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handleMultipartForm(request, response);
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255
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} else {
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256
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257
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String name = null;
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258
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String[] value = null;
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259
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String[] docid = new String[3];
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260
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Hashtable params = new Hashtable();
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261
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Enumeration paramlist = request.getParameterNames();
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262
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263
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while (paramlist.hasMoreElements()) {
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264
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265
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name = (String) paramlist.nextElement();
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266
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value = request.getParameterValues(name);
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267
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268
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// Decode the docid and mouse click information
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269
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if (name.endsWith(".y")) {
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270
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docid[0] = name.substring(0, name.length() - 2);
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271
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params.put("docid", docid);
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272
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name = "ypos";
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273
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}
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274
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if (name.endsWith(".x")) {
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275
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name = "xpos";
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276
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}
|
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277
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278
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params.put(name, value);
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279
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}
|
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280
|
|
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281
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//handle param is emptpy
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282
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if (params.isEmpty() || params == null) { return; }
|
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283
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|
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284
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//if the user clicked on the input images, decode which image
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285
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//was clicked then set the action.
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286
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String action = ((String[]) params.get("action"))[0];
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287
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MetaCatUtil.debugMessage("Line 230: Action is: " + action, 1);
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288
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|
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289
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// This block handles session management for the servlet
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290
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// by looking up the current session information for all actions
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291
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// other than "login" and "logout"
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292
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String username = null;
|
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293
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String password = null;
|
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294
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String[] groupnames = null;
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295
|
String sess_id = null;
|
|
296
|
|
|
297
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// handle login action
|
|
298
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if (action.equals("login")) {
|
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299
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PrintWriter out = response.getWriter();
|
|
300
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handleLoginAction(out, params, request, response);
|
|
301
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out.close();
|
|
302
|
|
|
303
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// handle logout action
|
|
304
|
} else if (action.equals("logout")) {
|
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305
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PrintWriter out = response.getWriter();
|
|
306
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handleLogoutAction(out, params, request, response);
|
|
307
|
out.close();
|
|
308
|
|
|
309
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// handle shrink DBConnection request
|
|
310
|
} else if (action.equals("shrink")) {
|
|
311
|
PrintWriter out = response.getWriter();
|
|
312
|
boolean success = false;
|
|
313
|
//If all DBConnection in the pool are free and DBConnection
|
|
314
|
// pool
|
|
315
|
//size is greater than initial value, shrink the connection
|
|
316
|
// pool
|
|
317
|
//size to initial value
|
|
318
|
success = DBConnectionPool.shrinkConnectionPoolSize();
|
|
319
|
if (success) {
|
|
320
|
//if successfully shrink the pool size to initial value
|
|
321
|
out.println("DBConnection Pool shrunk successfully.");
|
|
322
|
}//if
|
|
323
|
else {
|
|
324
|
out.println("DBConnection pool not shrunk successfully.");
|
|
325
|
}
|
|
326
|
//close out put
|
|
327
|
out.close();
|
|
328
|
|
|
329
|
// aware of session expiration on every request
|
|
330
|
} else {
|
|
331
|
HttpSession sess = request.getSession(true);
|
|
332
|
if (sess.isNew() && !params.containsKey("sessionid")) {
|
|
333
|
// session expired or has not been stored b/w user requests
|
|
334
|
MetaCatUtil.debugMessage(
|
|
335
|
"in session is new or no sessionid", 40);
|
|
336
|
username = "public";
|
|
337
|
sess.setAttribute("username", username);
|
|
338
|
} else {
|
|
339
|
MetaCatUtil.debugMessage("in session is not new or "
|
|
340
|
+ " has sessionid parameter", 40);
|
|
341
|
try {
|
|
342
|
if (params.containsKey("sessionid")) {
|
|
343
|
sess_id = ((String[]) params.get("sessionid"))[0];
|
|
344
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MetaCatUtil.debugMessage("in has sessionid "
|
|
345
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+ sess_id, 40);
|
|
346
|
if (sessionHash.containsKey(sess_id)) {
|
|
347
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MetaCatUtil.debugMessage("find the id "
|
|
348
|
+ sess_id + " in hash table", 40);
|
|
349
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sess = (HttpSession) sessionHash.get(sess_id);
|
|
350
|
}
|
|
351
|
} else {
|
|
352
|
// we already store the session in login, so we
|
|
353
|
// don't need here
|
|
354
|
/*
|
|
355
|
* MetaCatUtil.debugMessage("in no sessionid
|
|
356
|
* parameter ", 40); sess_id =
|
|
357
|
* (String)sess.getId();
|
|
358
|
* MetaCatUtil.debugMessage("storing the session id "
|
|
359
|
* + sess_id + " which has username " +
|
|
360
|
* sess.getAttribute("username") + " into session
|
|
361
|
* hash in handleGetOrPost method", 35);
|
|
362
|
*/
|
|
363
|
}
|
|
364
|
} catch (IllegalStateException ise) {
|
|
365
|
System.out.println(
|
|
366
|
"error in handleGetOrPost: this shouldn't "
|
|
367
|
+ "happen: the session should be valid: "
|
|
368
|
+ ise.getMessage());
|
|
369
|
}
|
|
370
|
|
|
371
|
username = (String) sess.getAttribute("username");
|
|
372
|
MetaCatUtil.debugMessage("The user name from session is: "
|
|
373
|
+ username, 20);
|
|
374
|
password = (String) sess.getAttribute("password");
|
|
375
|
groupnames = (String[]) sess.getAttribute("groupnames");
|
|
376
|
}
|
|
377
|
|
|
378
|
//make user user username should be public
|
|
379
|
if (username == null || (username.trim().equals(""))) {
|
|
380
|
username = "public";
|
|
381
|
}
|
|
382
|
MetaCatUtil.debugMessage("The user is : " + username, 5);
|
|
383
|
}
|
|
384
|
// Now that we know the session is valid, we can delegate the
|
|
385
|
// request
|
|
386
|
// to a particular action handler
|
|
387
|
if (action.equals("query")) {
|
|
388
|
PrintWriter out = response.getWriter();
|
|
389
|
handleQuery(out, params, response, username, groupnames,
|
|
390
|
sess_id);
|
|
391
|
out.close();
|
|
392
|
} else if (action.equals("squery")) {
|
|
393
|
PrintWriter out = response.getWriter();
|
|
394
|
if (params.containsKey("query")) {
|
|
395
|
handleSQuery(out, params, response, username, groupnames,
|
|
396
|
sess_id);
|
|
397
|
out.close();
|
|
398
|
} else {
|
|
399
|
out.println(
|
|
400
|
"Illegal action squery without \"query\" parameter");
|
|
401
|
out.close();
|
|
402
|
}
|
|
403
|
} else if (action.equals("export")) {
|
|
404
|
|
|
405
|
handleExportAction(params, response, username,
|
|
406
|
groupnames, password);
|
|
407
|
} else if (action.equals("read")) {
|
|
408
|
handleReadAction(params, request, response, username, password,
|
|
409
|
groupnames);
|
|
410
|
} else if (action.equals("readinlinedata")) {
|
|
411
|
handleReadInlineDataAction(params, request, response, username,
|
|
412
|
password, groupnames);
|
|
413
|
} else if (action.equals("insert") || action.equals("update")) {
|
|
414
|
PrintWriter out = response.getWriter();
|
|
415
|
if ((username != null) && !username.equals("public")) {
|
|
416
|
handleInsertOrUpdateAction(request, response,
|
|
417
|
out, params, username, groupnames);
|
|
418
|
} else {
|
|
419
|
out.println("Permission denied for user " + username + " "
|
|
420
|
+ action);
|
|
421
|
}
|
|
422
|
out.close();
|
|
423
|
} else if (action.equals("delete")) {
|
|
424
|
PrintWriter out = response.getWriter();
|
|
425
|
if ((username != null) && !username.equals("public")) {
|
|
426
|
handleDeleteAction(out, params, request, response, username,
|
|
427
|
groupnames);
|
|
428
|
} else {
|
|
429
|
out.println("Permission denied for " + action);
|
|
430
|
}
|
|
431
|
out.close();
|
|
432
|
} else if (action.equals("validate")) {
|
|
433
|
PrintWriter out = response.getWriter();
|
|
434
|
handleValidateAction(out, params);
|
|
435
|
out.close();
|
|
436
|
} else if (action.equals("setaccess")) {
|
|
437
|
PrintWriter out = response.getWriter();
|
|
438
|
handleSetAccessAction(out, params, username);
|
|
439
|
out.close();
|
|
440
|
} else if (action.equals("getaccesscontrol")) {
|
|
441
|
PrintWriter out = response.getWriter();
|
|
442
|
handleGetAccessControlAction(out, params, response, username,
|
|
443
|
groupnames);
|
|
444
|
out.close();
|
|
445
|
} else if (action.equals("getprincipals")) {
|
|
446
|
PrintWriter out = response.getWriter();
|
|
447
|
handleGetPrincipalsAction(out, username, password);
|
|
448
|
out.close();
|
|
449
|
} else if (action.equals("getdoctypes")) {
|
|
450
|
PrintWriter out = response.getWriter();
|
|
451
|
handleGetDoctypesAction(out, params, response);
|
|
452
|
out.close();
|
|
453
|
} else if (action.equals("getdtdschema")) {
|
|
454
|
PrintWriter out = response.getWriter();
|
|
455
|
handleGetDTDSchemaAction(out, params, response);
|
|
456
|
out.close();
|
|
457
|
} else if (action.equals("getlastdocid")) {
|
|
458
|
PrintWriter out = response.getWriter();
|
|
459
|
handleGetMaxDocidAction(out, params, response);
|
|
460
|
out.close();
|
|
461
|
} else if (action.equals("getrevisionanddoctype")) {
|
|
462
|
PrintWriter out = response.getWriter();
|
|
463
|
handleGetRevisionAndDocTypeAction(out, params);
|
|
464
|
out.close();
|
|
465
|
} else if (action.equals("getversion")) {
|
|
466
|
response.setContentType("text/xml");
|
|
467
|
PrintWriter out = response.getWriter();
|
|
468
|
out.println(Version.getVersionAsXml());
|
|
469
|
out.close();
|
|
470
|
} else if (action.equals("login") || action.equals("logout")) {
|
|
471
|
} else if (action.equals("protocoltest")) {
|
|
472
|
String testURL = "metacat://dev.nceas.ucsb.edu/NCEAS.897766.9";
|
|
473
|
try {
|
|
474
|
testURL = ((String[]) params.get("url"))[0];
|
|
475
|
} catch (Throwable t) {
|
|
476
|
}
|
|
477
|
String phandler = System
|
|
478
|
.getProperty("java.protocol.handler.pkgs");
|
|
479
|
response.setContentType("text/html");
|
|
480
|
PrintWriter out = response.getWriter();
|
|
481
|
out.println("<body bgcolor=\"white\">");
|
|
482
|
out.println("<p>Handler property: <code>" + phandler
|
|
483
|
+ "</code></p>");
|
|
484
|
out.println("<p>Starting test for:<br>");
|
|
485
|
out.println(" " + testURL + "</p>");
|
|
486
|
try {
|
|
487
|
URL u = new URL(testURL);
|
|
488
|
out.println("<pre>");
|
|
489
|
out.println("Protocol: " + u.getProtocol());
|
|
490
|
out.println(" Host: " + u.getHost());
|
|
491
|
out.println(" Port: " + u.getPort());
|
|
492
|
out.println(" Path: " + u.getPath());
|
|
493
|
out.println(" Ref: " + u.getRef());
|
|
494
|
String pquery = u.getQuery();
|
|
495
|
out.println(" Query: " + pquery);
|
|
496
|
out.println(" Params: ");
|
|
497
|
if (pquery != null) {
|
|
498
|
Hashtable qparams = MetaCatUtil.parseQuery(u.getQuery());
|
|
499
|
for (Enumeration en = qparams.keys(); en
|
|
500
|
.hasMoreElements();) {
|
|
501
|
String pname = (String) en.nextElement();
|
|
502
|
String pvalue = (String) qparams.get(pname);
|
|
503
|
out.println(" " + pname + ": " + pvalue);
|
|
504
|
}
|
|
505
|
}
|
|
506
|
out.println("</pre>");
|
|
507
|
out.println("</body>");
|
|
508
|
out.close();
|
|
509
|
} catch (MalformedURLException mue) {
|
|
510
|
System.out.println(
|
|
511
|
"bad url from MetacatServlet.handleGetOrPost");
|
|
512
|
out.println(mue.getMessage());
|
|
513
|
mue.printStackTrace(out);
|
|
514
|
out.close();
|
|
515
|
}
|
|
516
|
} else {
|
|
517
|
PrintWriter out = response.getWriter();
|
|
518
|
out.println("<?xml version=\"1.0\"?>");
|
|
519
|
out.println("<error>");
|
|
520
|
out.println(
|
|
521
|
"Error: action not registered. Please report this error.");
|
|
522
|
out.println("</error>");
|
|
523
|
out.close();
|
|
524
|
}
|
|
525
|
|
|
526
|
//util.closeConnections();
|
|
527
|
// Close the stream to the client
|
|
528
|
//out.close();
|
|
529
|
}
|
|
530
|
}
|
|
531
|
|
|
532
|
// LOGIN & LOGOUT SECTION
|
|
533
|
/**
|
|
534
|
* Handle the login request. Create a new session object. Do user
|
|
535
|
* authentication through the session.
|
|
536
|
*/
|
|
537
|
private void handleLoginAction(PrintWriter out, Hashtable params,
|
|
538
|
HttpServletRequest request, HttpServletResponse response)
|
|
539
|
{
|
|
540
|
|
|
541
|
AuthSession sess = null;
|
|
542
|
String un = ((String[]) params.get("username"))[0];
|
|
543
|
MetaCatUtil.debugMessage("user " + un + " try to login", 20);
|
|
544
|
String pw = ((String[]) params.get("password"))[0];
|
|
545
|
String action = ((String[]) params.get("action"))[0];
|
|
546
|
String qformat = ((String[]) params.get("qformat"))[0];
|
|
547
|
|
|
548
|
try {
|
|
549
|
sess = new AuthSession();
|
|
550
|
} catch (Exception e) {
|
|
551
|
System.out.println("error in MetacatServlet.handleLoginAction: "
|
|
552
|
+ e.getMessage());
|
|
553
|
out.println(e.getMessage());
|
|
554
|
return;
|
|
555
|
}
|
|
556
|
boolean isValid = sess.authenticate(request, un, pw);
|
|
557
|
|
|
558
|
//if it is authernticate is true, store the session
|
|
559
|
if (isValid) {
|
|
560
|
HttpSession session = sess.getSessions();
|
|
561
|
String id = session.getId();
|
|
562
|
MetaCatUtil.debugMessage("Store session id " + id
|
|
563
|
+ "which has username" + session.getAttribute("username")
|
|
564
|
+ " into hash in login method", 35);
|
|
565
|
sessionHash.put(id, session);
|
|
566
|
}
|
|
567
|
|
|
568
|
// format and transform the output
|
|
569
|
if (qformat.equals("xml")) {
|
|
570
|
response.setContentType("text/xml");
|
|
571
|
out.println(sess.getMessage());
|
|
572
|
} else {
|
|
573
|
try {
|
|
574
|
DBTransform trans = new DBTransform();
|
|
575
|
response.setContentType("text/html");
|
|
576
|
trans.transformXMLDocument(sess.getMessage(),
|
|
577
|
"-//NCEAS//login//EN", "-//W3C//HTML//EN", qformat,
|
|
578
|
out, null);
|
|
579
|
} catch (Exception e) {
|
|
580
|
|
|
581
|
MetaCatUtil.debugMessage(
|
|
582
|
"Error in MetaCatServlet.handleLoginAction: "
|
|
583
|
+ e.getMessage(), 30);
|
|
584
|
}
|
|
585
|
}
|
|
586
|
}
|
|
587
|
|
|
588
|
/**
|
|
589
|
* Handle the logout request. Close the connection.
|
|
590
|
*/
|
|
591
|
private void handleLogoutAction(PrintWriter out, Hashtable params,
|
|
592
|
HttpServletRequest request, HttpServletResponse response)
|
|
593
|
{
|
|
594
|
|
|
595
|
String qformat = ((String[]) params.get("qformat"))[0];
|
|
596
|
|
|
597
|
// close the connection
|
|
598
|
HttpSession sess = request.getSession(false);
|
|
599
|
MetaCatUtil.debugMessage("After get session in logout request", 40);
|
|
600
|
if (sess != null) {
|
|
601
|
MetaCatUtil.debugMessage("The session id " + sess.getId()
|
|
602
|
+ " will be invalidate in logout action", 30);
|
|
603
|
MetaCatUtil.debugMessage("The session contains user "
|
|
604
|
+ sess.getAttribute("username")
|
|
605
|
+ " will be invalidate in logout action", 30);
|
|
606
|
sess.invalidate();
|
|
607
|
}
|
|
608
|
|
|
609
|
// produce output
|
|
610
|
StringBuffer output = new StringBuffer();
|
|
611
|
output.append("<?xml version=\"1.0\"?>");
|
|
612
|
output.append("<logout>");
|
|
613
|
output.append("User logged out");
|
|
614
|
output.append("</logout>");
|
|
615
|
|
|
616
|
//format and transform the output
|
|
617
|
if (qformat.equals("xml")) {
|
|
618
|
response.setContentType("text/xml");
|
|
619
|
out.println(output.toString());
|
|
620
|
} else {
|
|
621
|
try {
|
|
622
|
DBTransform trans = new DBTransform();
|
|
623
|
response.setContentType("text/html");
|
|
624
|
trans.transformXMLDocument(output.toString(),
|
|
625
|
"-//NCEAS//login//EN", "-//W3C//HTML//EN", qformat,
|
|
626
|
out, null);
|
|
627
|
} catch (Exception e) {
|
|
628
|
MetaCatUtil.debugMessage(
|
|
629
|
"Error in MetaCatServlet.handleLogoutAction"
|
|
630
|
+ e.getMessage(), 30);
|
|
631
|
}
|
|
632
|
}
|
|
633
|
}
|
|
634
|
|
|
635
|
// END OF LOGIN & LOGOUT SECTION
|
|
636
|
|
|
637
|
// SQUERY & QUERY SECTION
|
|
638
|
/**
|
|
639
|
* Retreive the squery xml, execute it and display it
|
|
640
|
*
|
|
641
|
* @param out the output stream to the client
|
|
642
|
* @param params the Hashtable of parameters that should be included in the
|
|
643
|
* squery.
|
|
644
|
* @param response the response object linked to the client
|
|
645
|
* @param conn the database connection
|
|
646
|
*/
|
|
647
|
protected void handleSQuery(PrintWriter out, Hashtable params,
|
|
648
|
HttpServletResponse response, String user, String[] groups,
|
|
649
|
String sessionid)
|
|
650
|
{
|
|
651
|
double startTime = System.currentTimeMillis() / 1000;
|
|
652
|
DBQuery queryobj = new DBQuery(saxparser);
|
|
653
|
queryobj.findDocuments(response, out, params, user, groups, sessionid);
|
|
654
|
double outPutTime = System.currentTimeMillis() / 1000;
|
|
655
|
MetaCatUtil.debugMessage("total search time: "
|
|
656
|
+ (outPutTime - startTime), 30);
|
|
657
|
|
|
658
|
}
|
|
659
|
|
|
660
|
/**
|
|
661
|
* Create the xml query, execute it and display the results.
|
|
662
|
*
|
|
663
|
* @param out the output stream to the client
|
|
664
|
* @param params the Hashtable of parameters that should be included in the
|
|
665
|
* squery.
|
|
666
|
* @param response the response object linked to the client
|
|
667
|
*/
|
|
668
|
protected void handleQuery(PrintWriter out, Hashtable params,
|
|
669
|
HttpServletResponse response, String user, String[] groups,
|
|
670
|
String sessionid)
|
|
671
|
{
|
|
672
|
//create the query and run it
|
|
673
|
String xmlquery = DBQuery.createSQuery(params);
|
|
674
|
String[] queryArray = new String[1];
|
|
675
|
queryArray[0] = xmlquery;
|
|
676
|
params.put("query", queryArray);
|
|
677
|
double startTime = System.currentTimeMillis() / 1000;
|
|
678
|
DBQuery queryobj = new DBQuery(saxparser);
|
|
679
|
queryobj.findDocuments(response, out, params, user, groups, sessionid);
|
|
680
|
double outPutTime = System.currentTimeMillis() / 1000;
|
|
681
|
MetaCatUtil.debugMessage("total search time: "
|
|
682
|
+ (outPutTime - startTime), 30);
|
|
683
|
|
|
684
|
//handleSQuery(out, params, response,user, groups, sessionid);
|
|
685
|
}
|
|
686
|
|
|
687
|
// END OF SQUERY & QUERY SECTION
|
|
688
|
|
|
689
|
//Exoport section
|
|
690
|
/**
|
|
691
|
* Handle the "export" request of data package from Metacat in zip format
|
|
692
|
*
|
|
693
|
* @param params the Hashtable of HTTP request parameters
|
|
694
|
* @param response the HTTP response object linked to the client
|
|
695
|
* @param user the username sent the request
|
|
696
|
* @param groups the user's groupnames
|
|
697
|
*/
|
|
698
|
private void handleExportAction(Hashtable params,
|
|
699
|
HttpServletResponse response,
|
|
700
|
String user, String[] groups, String passWord)
|
|
701
|
{
|
|
702
|
// Output stream
|
|
703
|
ServletOutputStream out = null;
|
|
704
|
// Zip output stream
|
|
705
|
ZipOutputStream zOut = null;
|
|
706
|
DocumentImpl docImpls = null;
|
|
707
|
DBQuery queryObj = null;
|
|
708
|
|
|
709
|
String[] docs = new String[10];
|
|
710
|
String docId = "";
|
|
711
|
|
|
712
|
try {
|
|
713
|
// read the params
|
|
714
|
if (params.containsKey("docid")) {
|
|
715
|
docs = (String[]) params.get("docid");
|
|
716
|
}
|
|
717
|
// Create a DBuery to handle export
|
|
718
|
queryObj = new DBQuery(saxparser);
|
|
719
|
// Get the docid
|
|
720
|
docId = docs[0];
|
|
721
|
// Make sure the client specify docid
|
|
722
|
if (docId == null || docId.equals("")) {
|
|
723
|
response.setContentType("text/xml"); //MIME type
|
|
724
|
// Get a printwriter
|
|
725
|
PrintWriter pw = response.getWriter();
|
|
726
|
// Send back message
|
|
727
|
pw.println("<?xml version=\"1.0\"?>");
|
|
728
|
pw.println("<error>");
|
|
729
|
pw.println("You didn't specify requested docid");
|
|
730
|
pw.println("</error>");
|
|
731
|
// Close printwriter
|
|
732
|
pw.close();
|
|
733
|
return;
|
|
734
|
}
|
|
735
|
// Get output stream
|
|
736
|
out = response.getOutputStream();
|
|
737
|
response.setContentType("application/zip"); //MIME type
|
|
738
|
zOut = new ZipOutputStream(out);
|
|
739
|
zOut = queryObj
|
|
740
|
.getZippedPackage(docId, out, user, groups, passWord);
|
|
741
|
zOut.finish(); //terminate the zip file
|
|
742
|
zOut.close(); //close the zip stream
|
|
743
|
|
|
744
|
} catch (Exception e) {
|
|
745
|
try {
|
|
746
|
response.setContentType("text/xml"); //MIME type
|
|
747
|
// Send error message back
|
|
748
|
if (out != null) {
|
|
749
|
PrintWriter pw = new PrintWriter(out);
|
|
750
|
pw.println("<?xml version=\"1.0\"?>");
|
|
751
|
pw.println("<error>");
|
|
752
|
pw.println(e.getMessage());
|
|
753
|
pw.println("</error>");
|
|
754
|
// Close printwriter
|
|
755
|
pw.close();
|
|
756
|
// Close output stream
|
|
757
|
out.close();
|
|
758
|
}
|
|
759
|
// Close zip output stream
|
|
760
|
if (zOut != null) {
|
|
761
|
zOut.close();
|
|
762
|
}
|
|
763
|
} catch (IOException ioe) {
|
|
764
|
MetaCatUtil.debugMessage("Problem with the servlet output "
|
|
765
|
+ "in MetacatServlet.handleExportAction: "
|
|
766
|
+ ioe.getMessage(), 30);
|
|
767
|
}
|
|
768
|
|
|
769
|
MetaCatUtil.debugMessage(
|
|
770
|
"Error in MetacatServlet.handleExportAction: "
|
|
771
|
+ e.getMessage(), 30);
|
|
772
|
e.printStackTrace(System.out);
|
|
773
|
|
|
774
|
}
|
|
775
|
|
|
776
|
}
|
|
777
|
|
|
778
|
/**
|
|
779
|
* In eml2 document, the xml can have inline data and data was stripped off
|
|
780
|
* and store in file system. This action can be used to read inline data
|
|
781
|
* only
|
|
782
|
*
|
|
783
|
* @param params the Hashtable of HTTP request parameters
|
|
784
|
* @param response the HTTP response object linked to the client
|
|
785
|
* @param user the username sent the request
|
|
786
|
* @param groups the user's groupnames
|
|
787
|
*/
|
|
788
|
private void handleReadInlineDataAction(Hashtable params,
|
|
789
|
HttpServletRequest request, HttpServletResponse response,
|
|
790
|
String user, String passWord, String[] groups)
|
|
791
|
{
|
|
792
|
String[] docs = new String[10];
|
|
793
|
String inlineDataId = null;
|
|
794
|
String docId = "";
|
|
795
|
ServletOutputStream out = null;
|
|
796
|
|
|
797
|
try {
|
|
798
|
// read the params
|
|
799
|
if (params.containsKey("inlinedataid")) {
|
|
800
|
docs = (String[]) params.get("inlinedataid");
|
|
801
|
}
|
|
802
|
// Get the docid
|
|
803
|
inlineDataId = docs[0];
|
|
804
|
// Make sure the client specify docid
|
|
805
|
if (inlineDataId == null || inlineDataId.equals("")) {
|
|
806
|
throw new Exception("You didn't specify requested inlinedataid"); }
|
|
807
|
|
|
808
|
// check for permission
|
|
809
|
docId = MetaCatUtil
|
|
810
|
.getDocIdWithoutRevFromInlineDataID(inlineDataId);
|
|
811
|
PermissionController controller = new PermissionController(docId);
|
|
812
|
// check top level read permission
|
|
813
|
if (!controller.hasPermission(user, groups,
|
|
814
|
AccessControlInterface.READSTRING)) {
|
|
815
|
throw new Exception("User " + user
|
|
816
|
+ " doesn't have permission " + " to read document "
|
|
817
|
+ docId);
|
|
818
|
} else if (controller.hasSubTreeAccessControl()) {
|
|
819
|
// if the document has subtree control, we need to check
|
|
820
|
// subtree control
|
|
821
|
// get node id for inlinedata
|
|
822
|
long nodeId = getInlineDataNodeId(inlineDataId, docId);
|
|
823
|
if (!controller.hasPermissionForSubTreeNode(user, groups,
|
|
824
|
AccessControlInterface.READSTRING, nodeId)) {
|
|
825
|
throw new Exception(
|
|
826
|
"User " + user + " doesn't have permission "
|
|
827
|
+ " to read inlinedata " + inlineDataId);
|
|
828
|
}
|
|
829
|
}
|
|
830
|
|
|
831
|
// Get output stream
|
|
832
|
out = response.getOutputStream();
|
|
833
|
// read the inline data from the file
|
|
834
|
String inlinePath = MetaCatUtil.getOption("inlinedatafilepath");
|
|
835
|
File lineData = new File(inlinePath, inlineDataId);
|
|
836
|
FileInputStream input = new FileInputStream(lineData);
|
|
837
|
byte[] buffer = new byte[4 * 1024];
|
|
838
|
int bytes = input.read(buffer);
|
|
839
|
while (bytes != -1) {
|
|
840
|
out.write(buffer, 0, bytes);
|
|
841
|
bytes = input.read(buffer);
|
|
842
|
}
|
|
843
|
out.close();
|
|
844
|
|
|
845
|
EventLog.getInstance().log(request.getRemoteAddr(), user,
|
|
846
|
inlineDataId, "readinlinedata");
|
|
847
|
} catch (Exception e) {
|
|
848
|
try {
|
|
849
|
PrintWriter pw = null;
|
|
850
|
// Send error message back
|
|
851
|
if (out != null) {
|
|
852
|
pw = new PrintWriter(out);
|
|
853
|
} else {
|
|
854
|
pw = response.getWriter();
|
|
855
|
}
|
|
856
|
pw.println("<?xml version=\"1.0\"?>");
|
|
857
|
pw.println("<error>");
|
|
858
|
pw.println(e.getMessage());
|
|
859
|
pw.println("</error>");
|
|
860
|
// Close printwriter
|
|
861
|
pw.close();
|
|
862
|
// Close output stream if out is not null
|
|
863
|
if (out != null) {
|
|
864
|
out.close();
|
|
865
|
}
|
|
866
|
} catch (IOException ioe) {
|
|
867
|
MetaCatUtil.debugMessage("Problem with the servlet output "
|
|
868
|
+ "in MetacatServlet.handleExportAction: "
|
|
869
|
+ ioe.getMessage(), 30);
|
|
870
|
}
|
|
871
|
MetaCatUtil.debugMessage(
|
|
872
|
"Error in MetacatServlet.handleReadInlineDataAction: "
|
|
873
|
+ e.getMessage(), 30);
|
|
874
|
}
|
|
875
|
}
|
|
876
|
|
|
877
|
/*
|
|
878
|
* Get the nodeid from xml_nodes for the inlinedataid
|
|
879
|
*/
|
|
880
|
private long getInlineDataNodeId(String inLineDataId, String docId)
|
|
881
|
throws SQLException
|
|
882
|
{
|
|
883
|
long nodeId = 0;
|
|
884
|
String INLINE = "inline";
|
|
885
|
boolean hasRow;
|
|
886
|
PreparedStatement pStmt = null;
|
|
887
|
DBConnection conn = null;
|
|
888
|
int serialNumber = -1;
|
|
889
|
String sql = "SELECT nodeid FROM xml_nodes WHERE docid=? AND nodedata=? "
|
|
890
|
+ "AND nodetype='TEXT' AND parentnodeid IN "
|
|
891
|
+ "(SELECT nodeid FROM xml_nodes WHERE docid=? AND "
|
|
892
|
+ "nodetype='ELEMENT' AND nodename='" + INLINE + "')";
|
|
893
|
|
|
894
|
try {
|
|
895
|
//check out DBConnection
|
|
896
|
conn = DBConnectionPool
|
|
897
|
.getDBConnection("AccessControlList.isAllowFirst");
|
|
898
|
serialNumber = conn.getCheckOutSerialNumber();
|
|
899
|
|
|
900
|
pStmt = conn.prepareStatement(sql);
|
|
901
|
//bind value
|
|
902
|
pStmt.setString(1, docId);//docid
|
|
903
|
pStmt.setString(2, inLineDataId);//inlinedataid
|
|
904
|
pStmt.setString(3, docId);
|
|
905
|
// excute query
|
|
906
|
pStmt.execute();
|
|
907
|
ResultSet rs = pStmt.getResultSet();
|
|
908
|
hasRow = rs.next();
|
|
909
|
// get result
|
|
910
|
if (hasRow) {
|
|
911
|
nodeId = rs.getLong(1);
|
|
912
|
}//if
|
|
913
|
|
|
914
|
} catch (SQLException e) {
|
|
915
|
throw e;
|
|
916
|
} finally {
|
|
917
|
try {
|
|
918
|
pStmt.close();
|
|
919
|
} finally {
|
|
920
|
DBConnectionPool.returnDBConnection(conn, serialNumber);
|
|
921
|
}
|
|
922
|
}
|
|
923
|
MetaCatUtil.debugMessage("The nodeid for inlinedataid " + inLineDataId
|
|
924
|
+ " is: " + nodeId, 35);
|
|
925
|
return nodeId;
|
|
926
|
}
|
|
927
|
|
|
928
|
/**
|
|
929
|
* Handle the "read" request of metadata/data files from Metacat or any
|
|
930
|
* files from Internet; transformed metadata XML document into HTML
|
|
931
|
* presentation if requested; zip files when more than one were requested.
|
|
932
|
*
|
|
933
|
* @param params the Hashtable of HTTP request parameters
|
|
934
|
* @param request the HTTP request object linked to the client
|
|
935
|
* @param response the HTTP response object linked to the client
|
|
936
|
* @param user the username sent the request
|
|
937
|
* @param groups the user's groupnames
|
|
938
|
*/
|
|
939
|
private void handleReadAction(Hashtable params, HttpServletRequest request,
|
|
940
|
HttpServletResponse response, String user, String passWord,
|
|
941
|
String[] groups)
|
|
942
|
{
|
|
943
|
ServletOutputStream out = null;
|
|
944
|
ZipOutputStream zout = null;
|
|
945
|
PrintWriter pw = null;
|
|
946
|
boolean zip = false;
|
|
947
|
boolean withInlineData = true;
|
|
948
|
|
|
949
|
try {
|
|
950
|
String[] docs = new String[0];
|
|
951
|
String docid = "";
|
|
952
|
String qformat = "";
|
|
953
|
String abstrpath = null;
|
|
954
|
|
|
955
|
// read the params
|
|
956
|
if (params.containsKey("docid")) {
|
|
957
|
docs = (String[]) params.get("docid");
|
|
958
|
}
|
|
959
|
if (params.containsKey("qformat")) {
|
|
960
|
qformat = ((String[]) params.get("qformat"))[0];
|
|
961
|
}
|
|
962
|
// the param for only metadata (eml)
|
|
963
|
if (params.containsKey("inlinedata")) {
|
|
964
|
|
|
965
|
String inlineData = ((String[]) params.get("inlinedata"))[0];
|
|
966
|
if (inlineData.equalsIgnoreCase("false")) {
|
|
967
|
withInlineData = false;
|
|
968
|
}
|
|
969
|
}
|
|
970
|
if ((docs.length > 1) || qformat.equals("zip")) {
|
|
971
|
zip = true;
|
|
972
|
out = response.getOutputStream();
|
|
973
|
response.setContentType("application/zip"); //MIME type
|
|
974
|
zout = new ZipOutputStream(out);
|
|
975
|
}
|
|
976
|
// go through the list of docs to read
|
|
977
|
for (int i = 0; i < docs.length; i++) {
|
|
978
|
try {
|
|
979
|
|
|
980
|
URL murl = new URL(docs[i]);
|
|
981
|
Hashtable murlQueryStr = MetaCatUtil.parseQuery(
|
|
982
|
murl.getQuery());
|
|
983
|
// case docid="http://.../?docid=aaa"
|
|
984
|
// or docid="metacat://.../?docid=bbb"
|
|
985
|
if (murlQueryStr.containsKey("docid")) {
|
|
986
|
// get only docid, eliminate the rest
|
|
987
|
docid = (String) murlQueryStr.get("docid");
|
|
988
|
if (zip) {
|
|
989
|
addDocToZip(request, docid, zout, user, groups);
|
|
990
|
} else {
|
|
991
|
readFromMetacat(request, response, docid, qformat,
|
|
992
|
abstrpath, user, groups, zip, zout,
|
|
993
|
withInlineData, params);
|
|
994
|
}
|
|
995
|
|
|
996
|
// case docid="http://.../filename"
|
|
997
|
} else {
|
|
998
|
docid = docs[i];
|
|
999
|
if (zip) {
|
|
1000
|
addDocToZip(request, docid, zout, user, groups);
|
|
1001
|
} else {
|
|
1002
|
readFromURLConnection(response, docid);
|
|
1003
|
}
|
|
1004
|
}
|
|
1005
|
|
|
1006
|
} catch (MalformedURLException mue) {
|
|
1007
|
docid = docs[i];
|
|
1008
|
if (zip) {
|
|
1009
|
addDocToZip(request, docid, zout, user, groups);
|
|
1010
|
} else {
|
|
1011
|
readFromMetacat(request, response, docid, qformat,
|
|
1012
|
abstrpath, user, groups, zip, zout,
|
|
1013
|
withInlineData, params);
|
|
1014
|
}
|
|
1015
|
}
|
|
1016
|
}
|
|
1017
|
|
|
1018
|
if (zip) {
|
|
1019
|
zout.finish(); //terminate the zip file
|
|
1020
|
zout.close(); //close the zip stream
|
|
1021
|
}
|
|
1022
|
|
|
1023
|
} catch (McdbDocNotFoundException notFoundE) {
|
|
1024
|
// To handle doc not found exception
|
|
1025
|
// the docid which didn't be found
|
|
1026
|
String notFoundDocId = notFoundE.getUnfoundDocId();
|
|
1027
|
String notFoundRevision = notFoundE.getUnfoundRevision();
|
|
1028
|
MetaCatUtil.debugMessage("Missed id: " + notFoundDocId, 30);
|
|
1029
|
MetaCatUtil.debugMessage("Missed rev: " + notFoundRevision, 30);
|
|
1030
|
try {
|
|
1031
|
// read docid from remote server
|
|
1032
|
readFromRemoteMetaCat(response, notFoundDocId,
|
|
1033
|
notFoundRevision, user, passWord, out, zip, zout);
|
|
1034
|
// Close zout outputstream
|
|
1035
|
if (zout != null) {
|
|
1036
|
zout.close();
|
|
1037
|
}
|
|
1038
|
// close output stream
|
|
1039
|
if (out != null) {
|
|
1040
|
out.close();
|
|
1041
|
}
|
|
1042
|
|
|
1043
|
} catch (Exception exc) {
|
|
1044
|
MetaCatUtil.debugMessage(
|
|
1045
|
"Erorr in MetacatServlet.hanldReadAction: "
|
|
1046
|
+ exc.getMessage(), 30);
|
|
1047
|
try {
|
|
1048
|
if (out != null) {
|
|
1049
|
response.setContentType("text/xml");
|
|
1050
|
// Send back error message by printWriter
|
|
1051
|
pw = new PrintWriter(out);
|
|
1052
|
pw.println("<?xml version=\"1.0\"?>");
|
|
1053
|
pw.println("<error>");
|
|
1054
|
pw.println(notFoundE.getMessage());
|
|
1055
|
pw.println("</error>");
|
|
1056
|
pw.close();
|
|
1057
|
out.close();
|
|
1058
|
|
|
1059
|
} else {
|
|
1060
|
response.setContentType("text/xml"); //MIME type
|
|
1061
|
// Send back error message if out = null
|
|
1062
|
if (pw == null) {
|
|
1063
|
// If pw is null, open the respnose
|
|
1064
|
pw = response.getWriter();
|
|
1065
|
}
|
|
1066
|
pw.println("<?xml version=\"1.0\"?>");
|
|
1067
|
pw.println("<error>");
|
|
1068
|
pw.println(notFoundE.getMessage());
|
|
1069
|
pw.println("</error>");
|
|
1070
|
pw.close();
|
|
1071
|
}
|
|
1072
|
// close zout
|
|
1073
|
if (zout != null) {
|
|
1074
|
zout.close();
|
|
1075
|
}
|
|
1076
|
} catch (IOException ie) {
|
|
1077
|
MetaCatUtil.debugMessage("Problem with the servlet output "
|
|
1078
|
+ "in MetacatServlet.handleReadAction: "
|
|
1079
|
+ ie.getMessage(), 30);
|
|
1080
|
}
|
|
1081
|
}
|
|
1082
|
} catch (Exception e) {
|
|
1083
|
try {
|
|
1084
|
|
|
1085
|
if (out != null) {
|
|
1086
|
response.setContentType("text/xml"); //MIME type
|
|
1087
|
pw = new PrintWriter(out);
|
|
1088
|
pw.println("<?xml version=\"1.0\"?>");
|
|
1089
|
pw.println("<error>");
|
|
1090
|
pw.println(e.getMessage());
|
|
1091
|
pw.println("</error>");
|
|
1092
|
pw.close();
|
|
1093
|
out.close();
|
|
1094
|
} else {
|
|
1095
|
response.setContentType("text/xml"); //MIME type
|
|
1096
|
// Send back error message if out = null
|
|
1097
|
if (pw == null) {
|
|
1098
|
pw = response.getWriter();
|
|
1099
|
}
|
|
1100
|
pw.println("<?xml version=\"1.0\"?>");
|
|
1101
|
pw.println("<error>");
|
|
1102
|
pw.println(e.getMessage());
|
|
1103
|
pw.println("</error>");
|
|
1104
|
pw.close();
|
|
1105
|
|
|
1106
|
}
|
|
1107
|
// Close zip output stream
|
|
1108
|
if (zout != null) {
|
|
1109
|
zout.close();
|
|
1110
|
}
|
|
1111
|
|
|
1112
|
} catch (IOException ioe) {
|
|
1113
|
MetaCatUtil.debugMessage("Problem with the servlet output "
|
|
1114
|
+ "in MetacatServlet.handleReadAction: "
|
|
1115
|
+ ioe.getMessage(), 30);
|
|
1116
|
ioe.printStackTrace(System.out);
|
|
1117
|
|
|
1118
|
}
|
|
1119
|
|
|
1120
|
MetaCatUtil.debugMessage(
|
|
1121
|
"Error in MetacatServlet.handleReadAction: "
|
|
1122
|
+ e.getMessage(), 30);
|
|
1123
|
//e.printStackTrace(System.out);
|
|
1124
|
}
|
|
1125
|
}
|
|
1126
|
|
|
1127
|
/** read metadata or data from Metacat
|
|
1128
|
*/
|
|
1129
|
private void readFromMetacat(HttpServletRequest request,
|
|
1130
|
HttpServletResponse response, String docid, String qformat,
|
|
1131
|
String abstrpath, String user, String[] groups, boolean zip,
|
|
1132
|
ZipOutputStream zout, boolean withInlineData, Hashtable params)
|
|
1133
|
throws ClassNotFoundException, IOException, SQLException,
|
|
1134
|
McdbException, Exception
|
|
1135
|
{
|
|
1136
|
|
|
1137
|
try {
|
|
1138
|
|
|
1139
|
DocumentImpl doc = new DocumentImpl(docid);
|
|
1140
|
|
|
1141
|
//check the permission for read
|
|
1142
|
if (!doc.hasReadPermission(user, groups, docid)) {
|
|
1143
|
Exception e = new Exception("User " + user
|
|
1144
|
+ " does not have permission"
|
|
1145
|
+ " to read the document with the docid " + docid);
|
|
1146
|
|
|
1147
|
throw e;
|
|
1148
|
}
|
|
1149
|
|
|
1150
|
if (doc.getRootNodeID() == 0) {
|
|
1151
|
// this is data file
|
|
1152
|
String filepath = MetaCatUtil.getOption("datafilepath");
|
|
1153
|
if (!filepath.endsWith("/")) {
|
|
1154
|
filepath += "/";
|
|
1155
|
}
|
|
1156
|
String filename = filepath + docid;
|
|
1157
|
FileInputStream fin = null;
|
|
1158
|
fin = new FileInputStream(filename);
|
|
1159
|
|
|
1160
|
//MIME type
|
|
1161
|
String contentType = getServletContext().getMimeType(filename);
|
|
1162
|
if (contentType == null) {
|
|
1163
|
ContentTypeProvider provider = new ContentTypeProvider(
|
|
1164
|
docid);
|
|
1165
|
contentType = provider.getContentType();
|
|
1166
|
MetaCatUtil.debugMessage("Final contenttype is: "
|
|
1167
|
+ contentType, 30);
|
|
1168
|
}
|
|
1169
|
|
|
1170
|
response.setContentType(contentType);
|
|
1171
|
// if we decide to use "application/octet-stream" for all data
|
|
1172
|
// returns
|
|
1173
|
// response.setContentType("application/octet-stream");
|
|
1174
|
|
|
1175
|
try {
|
|
1176
|
|
|
1177
|
ServletOutputStream out = response.getOutputStream();
|
|
1178
|
byte[] buf = new byte[4 * 1024]; // 4K buffer
|
|
1179
|
int b = fin.read(buf);
|
|
1180
|
while (b != -1) {
|
|
1181
|
out.write(buf, 0, b);
|
|
1182
|
b = fin.read(buf);
|
|
1183
|
}
|
|
1184
|
} finally {
|
|
1185
|
if (fin != null) fin.close();
|
|
1186
|
}
|
|
1187
|
|
|
1188
|
} else {
|
|
1189
|
// this is metadata doc
|
|
1190
|
if (qformat.equals("xml")) {
|
|
1191
|
|
|
1192
|
// set content type first
|
|
1193
|
response.setContentType("text/xml"); //MIME type
|
|
1194
|
PrintWriter out = response.getWriter();
|
|
1195
|
doc.toXml(out, user, groups, withInlineData);
|
|
1196
|
} else {
|
|
1197
|
response.setContentType("text/html"); //MIME type
|
|
1198
|
PrintWriter out = response.getWriter();
|
|
1199
|
|
|
1200
|
// Look up the document type
|
|
1201
|
String doctype = doc.getDoctype();
|
|
1202
|
// Transform the document to the new doctype
|
|
1203
|
DBTransform dbt = new DBTransform();
|
|
1204
|
dbt.transformXMLDocument(doc.toString(user, groups,
|
|
1205
|
withInlineData), doctype, "-//W3C//HTML//EN",
|
|
1206
|
qformat, out, params);
|
|
1207
|
}
|
|
1208
|
|
|
1209
|
}
|
|
1210
|
EventLog.getInstance().log(request.getRemoteAddr(), user,
|
|
1211
|
docid, "read");
|
|
1212
|
} catch (Exception except) {
|
|
1213
|
throw except;
|
|
1214
|
}
|
|
1215
|
}
|
|
1216
|
|
|
1217
|
/**
|
|
1218
|
* read data from URLConnection
|
|
1219
|
*/
|
|
1220
|
private void readFromURLConnection(HttpServletResponse response,
|
|
1221
|
String docid) throws IOException, MalformedURLException
|
|
1222
|
{
|
|
1223
|
ServletOutputStream out = response.getOutputStream();
|
|
1224
|
String contentType = getServletContext().getMimeType(docid); //MIME
|
|
1225
|
// type
|
|
1226
|
if (contentType == null) {
|
|
1227
|
if (docid.endsWith(".xml")) {
|
|
1228
|
contentType = "text/xml";
|
|
1229
|
} else if (docid.endsWith(".css")) {
|
|
1230
|
contentType = "text/css";
|
|
1231
|
} else if (docid.endsWith(".dtd")) {
|
|
1232
|
contentType = "text/plain";
|
|
1233
|
} else if (docid.endsWith(".xsd")) {
|
|
1234
|
contentType = "text/xml";
|
|
1235
|
} else if (docid.endsWith("/")) {
|
|
1236
|
contentType = "text/html";
|
|
1237
|
} else {
|
|
1238
|
File f = new File(docid);
|
|
1239
|
if (f.isDirectory()) {
|
|
1240
|
contentType = "text/html";
|
|
1241
|
} else {
|
|
1242
|
contentType = "application/octet-stream";
|
|
1243
|
}
|
|
1244
|
}
|
|
1245
|
}
|
|
1246
|
response.setContentType(contentType);
|
|
1247
|
// if we decide to use "application/octet-stream" for all data returns
|
|
1248
|
// response.setContentType("application/octet-stream");
|
|
1249
|
|
|
1250
|
// this is http url
|
|
1251
|
URL url = new URL(docid);
|
|
1252
|
BufferedInputStream bis = null;
|
|
1253
|
try {
|
|
1254
|
bis = new BufferedInputStream(url.openStream());
|
|
1255
|
byte[] buf = new byte[4 * 1024]; // 4K buffer
|
|
1256
|
int b = bis.read(buf);
|
|
1257
|
while (b != -1) {
|
|
1258
|
out.write(buf, 0, b);
|
|
1259
|
b = bis.read(buf);
|
|
1260
|
}
|
|
1261
|
} finally {
|
|
1262
|
if (bis != null) bis.close();
|
|
1263
|
}
|
|
1264
|
|
|
1265
|
}
|
|
1266
|
|
|
1267
|
/**
|
|
1268
|
* read file/doc and write to ZipOutputStream
|
|
1269
|
*
|
|
1270
|
* @param docid
|
|
1271
|
* @param zout
|
|
1272
|
* @param user
|
|
1273
|
* @param groups
|
|
1274
|
* @throws ClassNotFoundException
|
|
1275
|
* @throws IOException
|
|
1276
|
* @throws SQLException
|
|
1277
|
* @throws McdbException
|
|
1278
|
* @throws Exception
|
|
1279
|
*/
|
|
1280
|
private void addDocToZip(HttpServletRequest request, String docid,
|
|
1281
|
ZipOutputStream zout, String user, String[] groups) throws
|
|
1282
|
ClassNotFoundException, IOException, SQLException, McdbException,
|
|
1283
|
Exception
|
|
1284
|
{
|
|
1285
|
byte[] bytestring = null;
|
|
1286
|
ZipEntry zentry = null;
|
|
1287
|
|
|
1288
|
try {
|
|
1289
|
URL url = new URL(docid);
|
|
1290
|
|
|
1291
|
// this http url; read from URLConnection; add to zip
|
|
1292
|
zentry = new ZipEntry(docid);
|
|
1293
|
zout.putNextEntry(zentry);
|
|
1294
|
BufferedInputStream bis = null;
|
|
1295
|
try {
|
|
1296
|
bis = new BufferedInputStream(url.openStream());
|
|
1297
|
byte[] buf = new byte[4 * 1024]; // 4K buffer
|
|
1298
|
int b = bis.read(buf);
|
|
1299
|
while (b != -1) {
|
|
1300
|
zout.write(buf, 0, b);
|
|
1301
|
b = bis.read(buf);
|
|
1302
|
}
|
|
1303
|
} finally {
|
|
1304
|
if (bis != null) bis.close();
|
|
1305
|
}
|
|
1306
|
zout.closeEntry();
|
|
1307
|
|
|
1308
|
} catch (MalformedURLException mue) {
|
|
1309
|
|
|
1310
|
// this is metacat doc (data file or metadata doc)
|
|
1311
|
try {
|
|
1312
|
DocumentImpl doc = new DocumentImpl(docid);
|
|
1313
|
|
|
1314
|
//check the permission for read
|
|
1315
|
if (!doc.hasReadPermission(user, groups, docid)) {
|
|
1316
|
Exception e = new Exception("User " + user
|
|
1317
|
+ " does not have "
|
|
1318
|
+ "permission to read the document with the docid "
|
|
1319
|
+ docid);
|
|
1320
|
throw e;
|
|
1321
|
}
|
|
1322
|
|
|
1323
|
if (doc.getRootNodeID() == 0) {
|
|
1324
|
// this is data file; add file to zip
|
|
1325
|
String filepath = MetaCatUtil.getOption("datafilepath");
|
|
1326
|
if (!filepath.endsWith("/")) {
|
|
1327
|
filepath += "/";
|
|
1328
|
}
|
|
1329
|
String filename = filepath + docid;
|
|
1330
|
FileInputStream fin = null;
|
|
1331
|
fin = new FileInputStream(filename);
|
|
1332
|
try {
|
|
1333
|
|
|
1334
|
zentry = new ZipEntry(docid);
|
|
1335
|
zout.putNextEntry(zentry);
|
|
1336
|
byte[] buf = new byte[4 * 1024]; // 4K buffer
|
|
1337
|
int b = fin.read(buf);
|
|
1338
|
while (b != -1) {
|
|
1339
|
zout.write(buf, 0, b);
|
|
1340
|
b = fin.read(buf);
|
|
1341
|
}
|
|
1342
|
} finally {
|
|
1343
|
if (fin != null) fin.close();
|
|
1344
|
}
|
|
1345
|
zout.closeEntry();
|
|
1346
|
|
|
1347
|
} else {
|
|
1348
|
// this is metadata doc; add doc to zip
|
|
1349
|
bytestring = doc.toString().getBytes();
|
|
1350
|
zentry = new ZipEntry(docid + ".xml");
|
|
1351
|
zentry.setSize(bytestring.length);
|
|
1352
|
zout.putNextEntry(zentry);
|
|
1353
|
zout.write(bytestring, 0, bytestring.length);
|
|
1354
|
zout.closeEntry();
|
|
1355
|
}
|
|
1356
|
EventLog.getInstance().log(request.getRemoteAddr(), user,
|
|
1357
|
docid, "read");
|
|
1358
|
} catch (Exception except) {
|
|
1359
|
throw except;
|
|
1360
|
}
|
|
1361
|
}
|
|
1362
|
}
|
|
1363
|
|
|
1364
|
/**
|
|
1365
|
* If metacat couldn't find a data file or document locally, it will read
|
|
1366
|
* this docid from its home server. This is for the replication feature
|
|
1367
|
*/
|
|
1368
|
private void readFromRemoteMetaCat(HttpServletResponse response,
|
|
1369
|
String docid, String rev, String user, String password,
|
|
1370
|
ServletOutputStream out, boolean zip, ZipOutputStream zout)
|
|
1371
|
throws Exception
|
|
1372
|
{
|
|
1373
|
// Create a object of RemoteDocument, "" is for zipEntryPath
|
|
1374
|
RemoteDocument remoteDoc = new RemoteDocument(docid, rev, user,
|
|
1375
|
password, "");
|
|
1376
|
String docType = remoteDoc.getDocType();
|
|
1377
|
// Only read data file
|
|
1378
|
if (docType.equals("BIN")) {
|
|
1379
|
// If it is zip format
|
|
1380
|
if (zip) {
|
|
1381
|
remoteDoc.readDocumentFromRemoteServerByZip(zout);
|
|
1382
|
} else {
|
|
1383
|
if (out == null) {
|
|
1384
|
out = response.getOutputStream();
|
|
1385
|
}
|
|
1386
|
response.setContentType("application/octet-stream");
|
|
1387
|
remoteDoc.readDocumentFromRemoteServer(out);
|
|
1388
|
}
|
|
1389
|
} else {
|
|
1390
|
throw new Exception("Docid: " + docid + "." + rev
|
|
1391
|
+ " couldn't find");
|
|
1392
|
}
|
|
1393
|
}
|
|
1394
|
|
|
1395
|
/**
|
|
1396
|
* Handle the database putdocument request and write an XML document to the
|
|
1397
|
* database connection
|
|
1398
|
*/
|
|
1399
|
private void handleInsertOrUpdateAction(HttpServletRequest request,
|
|
1400
|
HttpServletResponse response, PrintWriter out, Hashtable params,
|
|
1401
|
String user, String[] groups)
|
|
1402
|
{
|
|
1403
|
DBConnection dbConn = null;
|
|
1404
|
int serialNumber = -1;
|
|
1405
|
|
|
1406
|
try {
|
|
1407
|
// Get the document indicated
|
|
1408
|
String[] doctext = (String[]) params.get("doctext");
|
|
1409
|
|
|
1410
|
String pub = null;
|
|
1411
|
if (params.containsKey("public")) {
|
|
1412
|
pub = ((String[]) params.get("public"))[0];
|
|
1413
|
}
|
|
1414
|
|
|
1415
|
StringReader dtd = null;
|
|
1416
|
if (params.containsKey("dtdtext")) {
|
|
1417
|
String[] dtdtext = (String[]) params.get("dtdtext");
|
|
1418
|
try {
|
|
1419
|
if (!dtdtext[0].equals("")) {
|
|
1420
|
dtd = new StringReader(dtdtext[0]);
|
|
1421
|
}
|
|
1422
|
} catch (NullPointerException npe) {
|
|
1423
|
}
|
|
1424
|
}
|
|
1425
|
|
|
1426
|
StringReader xml = new StringReader(doctext[0]);
|
|
1427
|
boolean validate = false;
|
|
1428
|
DocumentImplWrapper documentWrapper = null;
|
|
1429
|
try {
|
|
1430
|
// look inside XML Document for <!DOCTYPE ... PUBLIC/SYSTEM ...
|
|
1431
|
// >
|
|
1432
|
// in order to decide whether to use validation parser
|
|
1433
|
validate = needDTDValidation(xml);
|
|
1434
|
if (validate) {
|
|
1435
|
// set a dtd base validation parser
|
|
1436
|
String rule = DocumentImpl.DTD;
|
|
1437
|
documentWrapper = new DocumentImplWrapper(rule, validate);
|
|
1438
|
} else if (needSchemaValidation(xml)) {
|
|
1439
|
// for eml2
|
|
1440
|
if (needEml2Validation(xml)) {
|
|
1441
|
// set eml2 base validation parser
|
|
1442
|
String rule = DocumentImpl.EML2;
|
|
1443
|
// using emlparser to check id validation
|
|
1444
|
EMLParser parser = new EMLParser(doctext[0]);
|
|
1445
|
documentWrapper = new DocumentImplWrapper(rule, true);
|
|
1446
|
} else {
|
|
1447
|
// set schema base validation parser
|
|
1448
|
String rule = DocumentImpl.SCHEMA;
|
|
1449
|
documentWrapper = new DocumentImplWrapper(rule, true);
|
|
1450
|
}
|
|
1451
|
} else {
|
|
1452
|
documentWrapper = new DocumentImplWrapper("", false);
|
|
1453
|
}
|
|
1454
|
|
|
1455
|
String[] action = (String[]) params.get("action");
|
|
1456
|
String[] docid = (String[]) params.get("docid");
|
|
1457
|
String newdocid = null;
|
|
1458
|
|
|
1459
|
String doAction = null;
|
|
1460
|
if (action[0].equals("insert")) {
|
|
1461
|
doAction = "INSERT";
|
|
1462
|
} else if (action[0].equals("update")) {
|
|
1463
|
doAction = "UPDATE";
|
|
1464
|
}
|
|
1465
|
|
|
1466
|
try {
|
|
1467
|
// get a connection from the pool
|
|
1468
|
dbConn = DBConnectionPool
|
|
1469
|
.getDBConnection("MetaCatServlet.handleInsertOrUpdateAction");
|
|
1470
|
serialNumber = dbConn.getCheckOutSerialNumber();
|
|
1471
|
|
|
1472
|
// write the document to the database
|
|
1473
|
try {
|
|
1474
|
String accNumber = docid[0];
|
|
1475
|
MetaCatUtil.debugMessage("" + doAction + " "
|
|
1476
|
+ accNumber + "...", 10);
|
|
1477
|
if (accNumber.equals("")) {
|
|
1478
|
accNumber = null;
|
|
1479
|
}
|
|
1480
|
newdocid = documentWrapper.write(dbConn, xml, pub, dtd,
|
|
1481
|
doAction, accNumber, user, groups);
|
|
1482
|
EventLog.getInstance().log(request.getRemoteAddr(),
|
|
1483
|
user, accNumber, action[0]);
|
|
1484
|
} catch (NullPointerException npe) {
|
|
1485
|
newdocid = documentWrapper.write(dbConn, xml, pub, dtd,
|
|
1486
|
doAction, null, user, groups);
|
|
1487
|
EventLog.getInstance().log(request.getRemoteAddr(),
|
|
1488
|
user, "", action[0]);
|
|
1489
|
}
|
|
1490
|
}
|
|
1491
|
finally {
|
|
1492
|
// Return db connection
|
|
1493
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
|
1494
|
}
|
|
1495
|
|
|
1496
|
// set content type and other response header fields first
|
|
1497
|
//response.setContentType("text/xml");
|
|
1498
|
out.println("<?xml version=\"1.0\"?>");
|
|
1499
|
out.println("<success>");
|
|
1500
|
out.println("<docid>" + newdocid + "</docid>");
|
|
1501
|
out.println("</success>");
|
|
1502
|
|
|
1503
|
} catch (NullPointerException npe) {
|
|
1504
|
//response.setContentType("text/xml");
|
|
1505
|
out.println("<?xml version=\"1.0\"?>");
|
|
1506
|
out.println("<error>");
|
|
1507
|
out.println(npe.getMessage());
|
|
1508
|
out.println("</error>");
|
|
1509
|
}
|
|
1510
|
} catch (Exception e) {
|
|
1511
|
//response.setContentType("text/xml");
|
|
1512
|
out.println("<?xml version=\"1.0\"?>");
|
|
1513
|
out.println("<error>");
|
|
1514
|
out.println(e.getMessage());
|
|
1515
|
out.println("</error>");
|
|
1516
|
}
|
|
1517
|
}
|
|
1518
|
|
|
1519
|
/**
|
|
1520
|
* Parse XML Document to look for <!DOCTYPE ... PUBLIC/SYSTEM ... > in
|
|
1521
|
* order to decide whether to use validation parser
|
|
1522
|
*/
|
|
1523
|
private static boolean needDTDValidation(StringReader xmlreader)
|
|
1524
|
throws IOException
|
|
1525
|
{
|
|
1526
|
|
|
1527
|
StringBuffer cbuff = new StringBuffer();
|
|
1528
|
java.util.Stack st = new java.util.Stack();
|
|
1529
|
boolean validate = false;
|
|
1530
|
int c;
|
|
1531
|
int inx;
|
|
1532
|
|
|
1533
|
// read from the stream until find the keywords
|
|
1534
|
while ((st.empty() || st.size() < 4) && ((c = xmlreader.read()) != -1)) {
|
|
1535
|
cbuff.append((char) c);
|
|
1536
|
|
|
1537
|
// "<!DOCTYPE" keyword is found; put it in the stack
|
|
1538
|
if ((inx = cbuff.toString().indexOf("<!DOCTYPE")) != -1) {
|
|
1539
|
cbuff = new StringBuffer();
|
|
1540
|
st.push("<!DOCTYPE");
|
|
1541
|
}
|
|
1542
|
// "PUBLIC" keyword is found; put it in the stack
|
|
1543
|
if ((inx = cbuff.toString().indexOf("PUBLIC")) != -1) {
|
|
1544
|
cbuff = new StringBuffer();
|
|
1545
|
st.push("PUBLIC");
|
|
1546
|
}
|
|
1547
|
// "SYSTEM" keyword is found; put it in the stack
|
|
1548
|
if ((inx = cbuff.toString().indexOf("SYSTEM")) != -1) {
|
|
1549
|
cbuff = new StringBuffer();
|
|
1550
|
st.push("SYSTEM");
|
|
1551
|
}
|
|
1552
|
// ">" character is found; put it in the stack
|
|
1553
|
// ">" is found twice: fisrt from <?xml ...?>
|
|
1554
|
// and second from <!DOCTYPE ... >
|
|
1555
|
if ((inx = cbuff.toString().indexOf(">")) != -1) {
|
|
1556
|
cbuff = new StringBuffer();
|
|
1557
|
st.push(">");
|
|
1558
|
}
|
|
1559
|
}
|
|
1560
|
|
|
1561
|
// close the stream
|
|
1562
|
xmlreader.reset();
|
|
1563
|
|
|
1564
|
// check the stack whether it contains the keywords:
|
|
1565
|
// "<!DOCTYPE", "PUBLIC" or "SYSTEM", and ">" in this order
|
|
1566
|
if (st.size() == 4) {
|
|
1567
|
if (((String) st.pop()).equals(">")
|
|
1568
|
&& (((String) st.peek()).equals("PUBLIC") | ((String) st
|
|
1569
|
.pop()).equals("SYSTEM"))
|
|
1570
|
&& ((String) st.pop()).equals("<!DOCTYPE")) {
|
|
1571
|
validate = true;
|
|
1572
|
}
|
|
1573
|
}
|
|
1574
|
|
|
1575
|
MetaCatUtil.debugMessage("Validation for dtd is " + validate, 10);
|
|
1576
|
return validate;
|
|
1577
|
}
|
|
1578
|
|
|
1579
|
// END OF INSERT/UPDATE SECTION
|
|
1580
|
|
|
1581
|
/* check if the xml string contains key words to specify schema loocation */
|
|
1582
|
private boolean needSchemaValidation(StringReader xml) throws IOException
|
|
1583
|
{
|
|
1584
|
boolean needSchemaValidate = false;
|
|
1585
|
if (xml == null) {
|
|
1586
|
MetaCatUtil.debugMessage("Validation for schema is "
|
|
1587
|
+ needSchemaValidate, 10);
|
|
1588
|
return needSchemaValidate;
|
|
1589
|
}
|
|
1590
|
System.out.println("before get target line");
|
|
1591
|
String targetLine = getSchemaLine(xml);
|
|
1592
|
System.out.println("before get target line");
|
|
1593
|
// to see if the second line contain some keywords
|
|
1594
|
if (targetLine != null
|
|
1595
|
&& (targetLine.indexOf(SCHEMALOCATIONKEYWORD) != -1 || targetLine
|
|
1596
|
.indexOf(NONAMESPACELOCATION) != -1)) {
|
|
1597
|
// if contains schema location key word, should be validate
|
|
1598
|
needSchemaValidate = true;
|
|
1599
|
}
|
|
1600
|
|
|
1601
|
MetaCatUtil.debugMessage("Validation for schema is "
|
|
1602
|
+ needSchemaValidate, 10);
|
|
1603
|
return needSchemaValidate;
|
|
1604
|
|
|
1605
|
}
|
|
1606
|
|
|
1607
|
/* check if the xml string contains key words to specify schema loocation */
|
|
1608
|
private boolean needEml2Validation(StringReader xml) throws IOException
|
|
1609
|
{
|
|
1610
|
boolean needEml2Validate = false;
|
|
1611
|
String emlNameSpace = DocumentImpl.EMLNAMESPACE;
|
|
1612
|
String schemaLocationContent = null;
|
|
1613
|
if (xml == null) {
|
|
1614
|
MetaCatUtil.debugMessage("Validation for schema is "
|
|
1615
|
+ needEml2Validate, 10);
|
|
1616
|
return needEml2Validate;
|
|
1617
|
}
|
|
1618
|
String targetLine = getSchemaLine(xml);
|
|
1619
|
|
|
1620
|
if (targetLine != null) {
|
|
1621
|
|
|
1622
|
int startIndex = targetLine.indexOf(SCHEMALOCATIONKEYWORD);
|
|
1623
|
int start = 1;
|
|
1624
|
int end = 1;
|
|
1625
|
String schemaLocation = null;
|
|
1626
|
int count = 0;
|
|
1627
|
if (startIndex != -1) {
|
|
1628
|
for (int i = startIndex; i < targetLine.length(); i++) {
|
|
1629
|
if (targetLine.charAt(i) == '"') {
|
|
1630
|
count++;
|
|
1631
|
}
|
|
1632
|
if (targetLine.charAt(i) == '"' && count == 1) {
|
|
1633
|
start = i;
|
|
1634
|
}
|
|
1635
|
if (targetLine.charAt(i) == '"' && count == 2) {
|
|
1636
|
end = i;
|
|
1637
|
break;
|
|
1638
|
}
|
|
1639
|
}
|
|
1640
|
}
|
|
1641
|
schemaLocation = targetLine.substring(start + 1, end);
|
|
1642
|
MetaCatUtil.debugMessage("schemaLocation in xml is: "
|
|
1643
|
+ schemaLocation, 30);
|
|
1644
|
if (schemaLocation.indexOf(emlNameSpace) != -1) {
|
|
1645
|
needEml2Validate = true;
|
|
1646
|
}
|
|
1647
|
}
|
|
1648
|
|
|
1649
|
MetaCatUtil.debugMessage("Validation for eml is " + needEml2Validate,
|
|
1650
|
10);
|
|
1651
|
return needEml2Validate;
|
|
1652
|
|
|
1653
|
}
|
|
1654
|
|
|
1655
|
private String getSchemaLine(StringReader xml) throws IOException
|
|
1656
|
{
|
|
1657
|
// find the line
|
|
1658
|
String secondLine = null;
|
|
1659
|
int count = 0;
|
|
1660
|
int endIndex = 0;
|
|
1661
|
int startIndex = 0;
|
|
1662
|
final int TARGETNUM = 2;
|
|
1663
|
StringBuffer buffer = new StringBuffer();
|
|
1664
|
boolean comment = false;
|
|
1665
|
char thirdPreviousCharacter = '?';
|
|
1666
|
char secondPreviousCharacter = '?';
|
|
1667
|
char previousCharacter = '?';
|
|
1668
|
char currentCharacter = '?';
|
|
1669
|
|
|
1670
|
while ((currentCharacter = (char) xml.read()) != -1) {
|
|
1671
|
//in a comment
|
|
1672
|
if (currentCharacter == '-' && previousCharacter == '-'
|
|
1673
|
&& secondPreviousCharacter == '!'
|
|
1674
|
&& thirdPreviousCharacter == '<') {
|
|
1675
|
comment = true;
|
|
1676
|
}
|
|
1677
|
//out of comment
|
|
1678
|
if (comment && currentCharacter == '>' && previousCharacter == '-'
|
|
1679
|
&& secondPreviousCharacter == '-') {
|
|
1680
|
comment = false;
|
|
1681
|
}
|
|
1682
|
|
|
1683
|
//this is not comment
|
|
1684
|
if (currentCharacter != '!' && previousCharacter == '<' && !comment) {
|
|
1685
|
count++;
|
|
1686
|
}
|
|
1687
|
// get target line
|
|
1688
|
if (count == TARGETNUM && currentCharacter != '>') {
|
|
1689
|
buffer.append(currentCharacter);
|
|
1690
|
}
|
|
1691
|
if (count == TARGETNUM && currentCharacter == '>') {
|
|
1692
|
break;
|
|
1693
|
}
|
|
1694
|
thirdPreviousCharacter = secondPreviousCharacter;
|
|
1695
|
secondPreviousCharacter = previousCharacter;
|
|
1696
|
previousCharacter = currentCharacter;
|
|
1697
|
|
|
1698
|
}
|
|
1699
|
secondLine = buffer.toString();
|
|
1700
|
MetaCatUtil
|
|
1701
|
.debugMessage("the second line string is: " + secondLine, 25);
|
|
1702
|
xml.reset();
|
|
1703
|
return secondLine;
|
|
1704
|
}
|
|
1705
|
|
|
1706
|
/**
|
|
1707
|
* Handle the database delete request and delete an XML document from the
|
|
1708
|
* database connection
|
|
1709
|
*/
|
|
1710
|
private void handleDeleteAction(PrintWriter out, Hashtable params,
|
|
1711
|
HttpServletRequest request, HttpServletResponse response,
|
|
1712
|
String user, String[] groups)
|
|
1713
|
{
|
|
1714
|
|
|
1715
|
String[] docid = (String[]) params.get("docid");
|
|
1716
|
|
|
1717
|
// delete the document from the database
|
|
1718
|
try {
|
|
1719
|
|
|
1720
|
// NOTE -- NEED TO TEST HERE
|
|
1721
|
// FOR EXISTENCE OF DOCID PARAM
|
|
1722
|
// BEFORE ACCESSING ARRAY
|
|
1723
|
try {
|
|
1724
|
DocumentImpl.delete(docid[0], user, groups);
|
|
1725
|
EventLog.getInstance().log(request.getRemoteAddr(),
|
|
1726
|
user, docid[0], "delete");
|
|
1727
|
response.setContentType("text/xml");
|
|
1728
|
out.println("<?xml version=\"1.0\"?>");
|
|
1729
|
out.println("<success>");
|
|
1730
|
out.println("Document deleted.");
|
|
1731
|
out.println("</success>");
|
|
1732
|
} catch (AccessionNumberException ane) {
|
|
1733
|
response.setContentType("text/xml");
|
|
1734
|
out.println("<?xml version=\"1.0\"?>");
|
|
1735
|
out.println("<error>");
|
|
1736
|
out.println("Error deleting document!!!");
|
|
1737
|
out.println(ane.getMessage());
|
|
1738
|
out.println("</error>");
|
|
1739
|
}
|
|
1740
|
} catch (Exception e) {
|
|
1741
|
response.setContentType("text/xml");
|
|
1742
|
out.println("<?xml version=\"1.0\"?>");
|
|
1743
|
out.println("<error>");
|
|
1744
|
out.println(e.getMessage());
|
|
1745
|
out.println("</error>");
|
|
1746
|
}
|
|
1747
|
}
|
|
1748
|
|
|
1749
|
/**
|
|
1750
|
* Handle the validation request and return the results to the requestor
|
|
1751
|
*/
|
|
1752
|
private void handleValidateAction(PrintWriter out, Hashtable params)
|
|
1753
|
{
|
|
1754
|
|
|
1755
|
// Get the document indicated
|
|
1756
|
String valtext = null;
|
|
1757
|
DBConnection dbConn = null;
|
|
1758
|
int serialNumber = -1;
|
|
1759
|
|
|
1760
|
try {
|
|
1761
|
valtext = ((String[]) params.get("valtext"))[0];
|
|
1762
|
} catch (Exception nullpe) {
|
|
1763
|
|
|
1764
|
String docid = null;
|
|
1765
|
try {
|
|
1766
|
// Find the document id number
|
|
1767
|
docid = ((String[]) params.get("docid"))[0];
|
|
1768
|
|
|
1769
|
// Get the document indicated from the db
|
|
1770
|
DocumentImpl xmldoc = new DocumentImpl(docid);
|
|
1771
|
valtext = xmldoc.toString();
|
|
1772
|
|
|
1773
|
} catch (NullPointerException npe) {
|
|
1774
|
|
|
1775
|
out.println("<error>Error getting document ID: " + docid
|
|
1776
|
+ "</error>");
|
|
1777
|
//if ( conn != null ) { util.returnConnection(conn); }
|
|
1778
|
return;
|
|
1779
|
} catch (Exception e) {
|
|
1780
|
|
|
1781
|
out.println(e.getMessage());
|
|
1782
|
}
|
|
1783
|
}
|
|
1784
|
|
|
1785
|
try {
|
|
1786
|
// get a connection from the pool
|
|
1787
|
dbConn = DBConnectionPool
|
|
1788
|
.getDBConnection("MetaCatServlet.handleValidateAction");
|
|
1789
|
serialNumber = dbConn.getCheckOutSerialNumber();
|
|
1790
|
DBValidate valobj = new DBValidate(saxparser, dbConn);
|
|
1791
|
boolean valid = valobj.validateString(valtext);
|
|
1792
|
|
|
1793
|
// set content type and other response header fields first
|
|
1794
|
|
|
1795
|
out.println(valobj.returnErrors());
|
|
1796
|
|
|
1797
|
} catch (NullPointerException npe2) {
|
|
1798
|
// set content type and other response header fields first
|
|
1799
|
|
|
1800
|
out.println("<error>Error validating document.</error>");
|
|
1801
|
} catch (Exception e) {
|
|
1802
|
|
|
1803
|
out.println(e.getMessage());
|
|
1804
|
} finally {
|
|
1805
|
// Return db connection
|
|
1806
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
|
1807
|
}
|
|
1808
|
}
|
|
1809
|
|
|
1810
|
/**
|
|
1811
|
* Handle "getrevsionanddoctype" action Given a docid, return it's current
|
|
1812
|
* revision and doctype from data base The output is String look like
|
|
1813
|
* "rev;doctype"
|
|
1814
|
*/
|
|
1815
|
private void handleGetRevisionAndDocTypeAction(PrintWriter out,
|
|
1816
|
Hashtable params)
|
|
1817
|
{
|
|
1818
|
// To store doc parameter
|
|
1819
|
String[] docs = new String[10];
|
|
1820
|
// Store a single doc id
|
|
1821
|
String givenDocId = null;
|
|
1822
|
// Get docid from parameters
|
|
1823
|
if (params.containsKey("docid")) {
|
|
1824
|
docs = (String[]) params.get("docid");
|
|
1825
|
}
|
|
1826
|
// Get first docid form string array
|
|
1827
|
givenDocId = docs[0];
|
|
1828
|
|
|
1829
|
try {
|
|
1830
|
// Make sure there is a docid
|
|
1831
|
if (givenDocId == null || givenDocId.equals("")) { throw new Exception(
|
|
1832
|
"User didn't specify docid!"); }//if
|
|
1833
|
|
|
1834
|
// Create a DBUtil object
|
|
1835
|
DBUtil dbutil = new DBUtil();
|
|
1836
|
// Get a rev and doctype
|
|
1837
|
String revAndDocType = dbutil
|
|
1838
|
.getCurrentRevisionAndDocTypeForGivenDocument(givenDocId);
|
|
1839
|
out.println(revAndDocType);
|
|
1840
|
|
|
1841
|
} catch (Exception e) {
|
|
1842
|
// Handle exception
|
|
1843
|
out.println("<?xml version=\"1.0\"?>");
|
|
1844
|
out.println("<error>");
|
|
1845
|
out.println(e.getMessage());
|
|
1846
|
out.println("</error>");
|
|
1847
|
}
|
|
1848
|
|
|
1849
|
}
|
|
1850
|
|
|
1851
|
/**
|
|
1852
|
* Handle "getaccesscontrol" action. Read Access Control List from db
|
|
1853
|
* connection in XML format
|
|
1854
|
*/
|
|
1855
|
private void handleGetAccessControlAction(PrintWriter out,
|
|
1856
|
Hashtable params, HttpServletResponse response, String username,
|
|
1857
|
String[] groupnames)
|
|
1858
|
{
|
|
1859
|
DBConnection dbConn = null;
|
|
1860
|
int serialNumber = -1;
|
|
1861
|
String docid = ((String[]) params.get("docid"))[0];
|
|
1862
|
|
|
1863
|
try {
|
|
1864
|
|
|
1865
|
// get connection from the pool
|
|
1866
|
dbConn = DBConnectionPool
|
|
1867
|
.getDBConnection("MetaCatServlet.handleGetAccessControlAction");
|
|
1868
|
serialNumber = dbConn.getCheckOutSerialNumber();
|
|
1869
|
AccessControlList aclobj = new AccessControlList(dbConn);
|
|
1870
|
String acltext = aclobj.getACL(docid, username, groupnames);
|
|
1871
|
out.println(acltext);
|
|
1872
|
|
|
1873
|
} catch (Exception e) {
|
|
1874
|
out.println("<?xml version=\"1.0\"?>");
|
|
1875
|
out.println("<error>");
|
|
1876
|
out.println(e.getMessage());
|
|
1877
|
out.println("</error>");
|
|
1878
|
} finally {
|
|
1879
|
// Retrun db connection to pool
|
|
1880
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
|
1881
|
}
|
|
1882
|
}
|
|
1883
|
|
|
1884
|
/**
|
|
1885
|
* Handle the "getprincipals" action. Read all principals from
|
|
1886
|
* authentication scheme in XML format
|
|
1887
|
*/
|
|
1888
|
private void handleGetPrincipalsAction(PrintWriter out, String user,
|
|
1889
|
String password)
|
|
1890
|
{
|
|
1891
|
try {
|
|
1892
|
AuthSession auth = new AuthSession();
|
|
1893
|
String principals = auth.getPrincipals(user, password);
|
|
1894
|
out.println(principals);
|
|
1895
|
|
|
1896
|
} catch (Exception e) {
|
|
1897
|
out.println("<?xml version=\"1.0\"?>");
|
|
1898
|
out.println("<error>");
|
|
1899
|
out.println(e.getMessage());
|
|
1900
|
out.println("</error>");
|
|
1901
|
}
|
|
1902
|
}
|
|
1903
|
|
|
1904
|
/**
|
|
1905
|
* Handle "getdoctypes" action. Read all doctypes from db connection in XML
|
|
1906
|
* format
|
|
1907
|
*/
|
|
1908
|
private void handleGetDoctypesAction(PrintWriter out, Hashtable params,
|
|
1909
|
HttpServletResponse response)
|
|
1910
|
{
|
|
1911
|
try {
|
|
1912
|
DBUtil dbutil = new DBUtil();
|
|
1913
|
String doctypes = dbutil.readDoctypes();
|
|
1914
|
out.println(doctypes);
|
|
1915
|
} catch (Exception e) {
|
|
1916
|
out.println("<?xml version=\"1.0\"?>");
|
|
1917
|
out.println("<error>");
|
|
1918
|
out.println(e.getMessage());
|
|
1919
|
out.println("</error>");
|
|
1920
|
}
|
|
1921
|
}
|
|
1922
|
|
|
1923
|
/**
|
|
1924
|
* Handle the "getdtdschema" action. Read DTD or Schema file for a given
|
|
1925
|
* doctype from Metacat catalog system
|
|
1926
|
*/
|
|
1927
|
private void handleGetDTDSchemaAction(PrintWriter out, Hashtable params,
|
|
1928
|
HttpServletResponse response)
|
|
1929
|
{
|
|
1930
|
|
|
1931
|
String doctype = null;
|
|
1932
|
String[] doctypeArr = (String[]) params.get("doctype");
|
|
1933
|
|
|
1934
|
// get only the first doctype specified in the list of doctypes
|
|
1935
|
// it could be done for all doctypes in that list
|
|
1936
|
if (doctypeArr != null) {
|
|
1937
|
doctype = ((String[]) params.get("doctype"))[0];
|
|
1938
|
}
|
|
1939
|
|
|
1940
|
try {
|
|
1941
|
DBUtil dbutil = new DBUtil();
|
|
1942
|
String dtdschema = dbutil.readDTDSchema(doctype);
|
|
1943
|
out.println(dtdschema);
|
|
1944
|
|
|
1945
|
} catch (Exception e) {
|
|
1946
|
out.println("<?xml version=\"1.0\"?>");
|
|
1947
|
out.println("<error>");
|
|
1948
|
out.println(e.getMessage());
|
|
1949
|
out.println("</error>");
|
|
1950
|
}
|
|
1951
|
|
|
1952
|
}
|
|
1953
|
|
|
1954
|
/**
|
|
1955
|
* Handle the "getlastdocid" action. Get the latest docid with rev number
|
|
1956
|
* from db connection in XML format
|
|
1957
|
*/
|
|
1958
|
private void handleGetMaxDocidAction(PrintWriter out, Hashtable params,
|
|
1959
|
HttpServletResponse response)
|
|
1960
|
{
|
|
1961
|
|
|
1962
|
String scope = ((String[]) params.get("scope"))[0];
|
|
1963
|
if (scope == null) {
|
|
1964
|
scope = ((String[]) params.get("username"))[0];
|
|
1965
|
}
|
|
1966
|
|
|
1967
|
try {
|
|
1968
|
|
|
1969
|
DBUtil dbutil = new DBUtil();
|
|
1970
|
String lastDocid = dbutil.getMaxDocid(scope);
|
|
1971
|
out.println("<?xml version=\"1.0\"?>");
|
|
1972
|
out.println("<lastDocid>");
|
|
1973
|
out.println(" <scope>" + scope + "</scope>");
|
|
1974
|
out.println(" <docid>" + lastDocid + "</docid>");
|
|
1975
|
out.println("</lastDocid>");
|
|
1976
|
|
|
1977
|
} catch (Exception e) {
|
|
1978
|
out.println("<?xml version=\"1.0\"?>");
|
|
1979
|
out.println("<error>");
|
|
1980
|
out.println(e.getMessage());
|
|
1981
|
out.println("</error>");
|
|
1982
|
}
|
|
1983
|
|
|
1984
|
}
|
|
1985
|
|
|
1986
|
/**
|
|
1987
|
* Handle documents passed to metacat that are encoded using the
|
|
1988
|
* "multipart/form-data" mime type. This is typically used for uploading
|
|
1989
|
* data files which may be binary and large.
|
|
1990
|
*/
|
|
1991
|
private void handleMultipartForm(HttpServletRequest request,
|
|
1992
|
HttpServletResponse response)
|
|
1993
|
{
|
|
1994
|
PrintWriter out = null;
|
|
1995
|
String action = null;
|
|
1996
|
|
|
1997
|
// Parse the multipart form, and save the parameters in a Hashtable and
|
|
1998
|
// save the FileParts in a hashtable
|
|
1999
|
|
|
2000
|
Hashtable params = new Hashtable();
|
|
2001
|
Hashtable fileList = new Hashtable();
|
|
2002
|
int sizeLimit = (new Integer(MetaCatUtil.getOption("datafilesizelimit")))
|
|
2003
|
.intValue();
|
|
2004
|
MetaCatUtil.debugMessage(
|
|
2005
|
"The limit size of data file is: " + sizeLimit, 50);
|
|
2006
|
|
|
2007
|
try {
|
|
2008
|
// MBJ: need to put filesize limit in Metacat config
|
|
2009
|
// (metacat.properties)
|
|
2010
|
MultipartParser mp = new MultipartParser(request,
|
|
2011
|
sizeLimit * 1024 * 1024);
|
|
2012
|
Part part;
|
|
2013
|
while ((part = mp.readNextPart()) != null) {
|
|
2014
|
String name = part.getName();
|
|
2015
|
|
|
2016
|
if (part.isParam()) {
|
|
2017
|
// it's a parameter part
|
|
2018
|
ParamPart paramPart = (ParamPart) part;
|
|
2019
|
String value = paramPart.getStringValue();
|
|
2020
|
params.put(name, value);
|
|
2021
|
if (name.equals("action")) {
|
|
2022
|
action = value;
|
|
2023
|
}
|
|
2024
|
} else if (part.isFile()) {
|
|
2025
|
// it's a file part
|
|
2026
|
FilePart filePart = (FilePart) part;
|
|
2027
|
fileList.put(name, filePart);
|
|
2028
|
|
|
2029
|
// Stop once the first file part is found, otherwise going
|
|
2030
|
// onto the
|
|
2031
|
// next part prevents access to the file contents. So...for
|
|
2032
|
// upload
|
|
2033
|
// to work, the datafile must be the last part
|
|
2034
|
break;
|
|
2035
|
}
|
|
2036
|
}
|
|
2037
|
} catch (IOException ioe) {
|
|
2038
|
try {
|
|
2039
|
out = response.getWriter();
|
|
2040
|
} catch (IOException ioe2) {
|
|
2041
|
System.err
|
|
2042
|
.println("Fatal Error: couldn't get response output stream.");
|
|
2043
|
}
|
|
2044
|
out.println("<?xml version=\"1.0\"?>");
|
|
2045
|
out.println("<error>");
|
|
2046
|
out.println("Error: problem reading multipart data.");
|
|
2047
|
out.println("</error>");
|
|
2048
|
}
|
|
2049
|
|
|
2050
|
// Get the session information
|
|
2051
|
String username = null;
|
|
2052
|
String password = null;
|
|
2053
|
String[] groupnames = null;
|
|
2054
|
String sess_id = null;
|
|
2055
|
|
|
2056
|
// be aware of session expiration on every request
|
|
2057
|
HttpSession sess = request.getSession(true);
|
|
2058
|
if (sess.isNew()) {
|
|
2059
|
// session expired or has not been stored b/w user requests
|
|
2060
|
username = "public";
|
|
2061
|
sess.setAttribute("username", username);
|
|
2062
|
} else {
|
|
2063
|
username = (String) sess.getAttribute("username");
|
|
2064
|
password = (String) sess.getAttribute("password");
|
|
2065
|
groupnames = (String[]) sess.getAttribute("groupnames");
|
|
2066
|
try {
|
|
2067
|
sess_id = (String) sess.getId();
|
|
2068
|
} catch (IllegalStateException ise) {
|
|
2069
|
System.out
|
|
2070
|
.println("error in handleMultipartForm: this shouldn't "
|
|
2071
|
+ "happen: the session should be valid: "
|
|
2072
|
+ ise.getMessage());
|
|
2073
|
}
|
|
2074
|
}
|
|
2075
|
|
|
2076
|
// Get the out stream
|
|
2077
|
try {
|
|
2078
|
out = response.getWriter();
|
|
2079
|
} catch (IOException ioe2) {
|
|
2080
|
MetaCatUtil.debugMessage("Fatal Error: couldn't get response "
|
|
2081
|
+ "output stream.", 30);
|
|
2082
|
}
|
|
2083
|
|
|
2084
|
if (action.equals("upload")) {
|
|
2085
|
if (username != null && !username.equals("public")) {
|
|
2086
|
handleUploadAction(request, out, params, fileList, username,
|
|
2087
|
groupnames);
|
|
2088
|
} else {
|
|
2089
|
|
|
2090
|
out.println("<?xml version=\"1.0\"?>");
|
|
2091
|
out.println("<error>");
|
|
2092
|
out.println("Permission denied for " + action);
|
|
2093
|
out.println("</error>");
|
|
2094
|
}
|
|
2095
|
} else {
|
|
2096
|
/*
|
|
2097
|
* try { out = response.getWriter(); } catch (IOException ioe2) {
|
|
2098
|
* System.err.println("Fatal Error: couldn't get response output
|
|
2099
|
* stream.");
|
|
2100
|
*/
|
|
2101
|
out.println("<?xml version=\"1.0\"?>");
|
|
2102
|
out.println("<error>");
|
|
2103
|
out.println(
|
|
2104
|
"Error: action not registered. Please report this error.");
|
|
2105
|
out.println("</error>");
|
|
2106
|
}
|
|
2107
|
out.close();
|
|
2108
|
}
|
|
2109
|
|
|
2110
|
/**
|
|
2111
|
* Handle the upload action by saving the attached file to disk and
|
|
2112
|
* registering it in the Metacat db
|
|
2113
|
*/
|
|
2114
|
private void handleUploadAction(HttpServletRequest request,
|
|
2115
|
PrintWriter out, Hashtable params, Hashtable fileList,
|
|
2116
|
String username, String[] groupnames)
|
|
2117
|
{
|
|
2118
|
//PrintWriter out = null;
|
|
2119
|
//Connection conn = null;
|
|
2120
|
String action = null;
|
|
2121
|
String docid = null;
|
|
2122
|
|
|
2123
|
/*
|
|
2124
|
* response.setContentType("text/xml"); try { out =
|
|
2125
|
* response.getWriter(); } catch (IOException ioe2) {
|
|
2126
|
* System.err.println("Fatal Error: couldn't get response output
|
|
2127
|
* stream.");
|
|
2128
|
*/
|
|
2129
|
|
|
2130
|
if (params.containsKey("docid")) {
|
|
2131
|
docid = (String) params.get("docid");
|
|
2132
|
}
|
|
2133
|
|
|
2134
|
// Make sure we have a docid and datafile
|
|
2135
|
if (docid != null && fileList.containsKey("datafile")) {
|
|
2136
|
|
|
2137
|
// Get a reference to the file part of the form
|
|
2138
|
FilePart filePart = (FilePart) fileList.get("datafile");
|
|
2139
|
String fileName = filePart.getFileName();
|
|
2140
|
MetaCatUtil.debugMessage("Uploading filename: " + fileName, 10);
|
|
2141
|
|
|
2142
|
// Check if the right file existed in the uploaded data
|
|
2143
|
if (fileName != null) {
|
|
2144
|
|
|
2145
|
try {
|
|
2146
|
//MetaCatUtil.debugMessage("Upload datafile " + docid
|
|
2147
|
// +"...", 10);
|
|
2148
|
//If document get lock data file grant
|
|
2149
|
if (DocumentImpl.getDataFileLockGrant(docid)) {
|
|
2150
|
// register the file in the database (which generates
|
|
2151
|
// an exception
|
|
2152
|
//if the docid is not acceptable or other untoward
|
|
2153
|
// things happen
|
|
2154
|
DocumentImpl.registerDocument(fileName, "BIN", docid,
|
|
2155
|
username);
|
|
2156
|
|
|
2157
|
// Save the data file to disk using "docid" as the name
|
|
2158
|
dataDirectory.mkdirs();
|
|
2159
|
File newFile = new File(dataDirectory, docid);
|
|
2160
|
long size = filePart.writeTo(newFile);
|
|
2161
|
|
|
2162
|
EventLog.getInstance().log(request.getRemoteAddr(),
|
|
2163
|
username, docid, "upload");
|
|
2164
|
// Force replication this data file
|
|
2165
|
// To data file, "insert" and update is same
|
|
2166
|
// The fourth parameter is null. Because it is
|
|
2167
|
// notification server
|
|
2168
|
// and this method is in MetaCatServerlet. It is
|
|
2169
|
// original command,
|
|
2170
|
// not get force replication info from another metacat
|
|
2171
|
ForceReplicationHandler frh = new ForceReplicationHandler(
|
|
2172
|
docid, "insert", false, null);
|
|
2173
|
|
|
2174
|
// set content type and other response header fields
|
|
2175
|
// first
|
|
2176
|
out.println("<?xml version=\"1.0\"?>");
|
|
2177
|
out.println("<success>");
|
|
2178
|
out.println("<docid>" + docid + "</docid>");
|
|
2179
|
out.println("<size>" + size + "</size>");
|
|
2180
|
out.println("</success>");
|
|
2181
|
}
|
|
2182
|
|
|
2183
|
} catch (Exception e) {
|
|
2184
|
out.println("<?xml version=\"1.0\"?>");
|
|
2185
|
out.println("<error>");
|
|
2186
|
out.println(e.getMessage());
|
|
2187
|
out.println("</error>");
|
|
2188
|
}
|
|
2189
|
} else {
|
|
2190
|
// the field did not contain a file
|
|
2191
|
out.println("<?xml version=\"1.0\"?>");
|
|
2192
|
out.println("<error>");
|
|
2193
|
out.println("The uploaded data did not contain a valid file.");
|
|
2194
|
out.println("</error>");
|
|
2195
|
}
|
|
2196
|
} else {
|
|
2197
|
// Error bcse docid missing or file missing
|
|
2198
|
out.println("<?xml version=\"1.0\"?>");
|
|
2199
|
out.println("<error>");
|
|
2200
|
out.println("The uploaded data did not contain a valid docid "
|
|
2201
|
+ "or valid file.");
|
|
2202
|
out.println("</error>");
|
|
2203
|
}
|
|
2204
|
}
|
|
2205
|
|
|
2206
|
/*
|
|
2207
|
* A method to handle set access action
|
|
2208
|
*/
|
|
2209
|
private void handleSetAccessAction(PrintWriter out, Hashtable params,
|
|
2210
|
String username)
|
|
2211
|
{
|
|
2212
|
String[] docList = null;
|
|
2213
|
String[] principalList = null;
|
|
2214
|
String[] permissionList = null;
|
|
2215
|
String[] permTypeList = null;
|
|
2216
|
String[] permOrderList = null;
|
|
2217
|
String permission = null;
|
|
2218
|
String permType = null;
|
|
2219
|
String permOrder = null;
|
|
2220
|
Vector errorList = new Vector();
|
|
2221
|
String error = null;
|
|
2222
|
Vector successList = new Vector();
|
|
2223
|
String success = null;
|
|
2224
|
|
|
2225
|
// Get parameters
|
|
2226
|
if (params.containsKey("docid")) {
|
|
2227
|
docList = (String[]) params.get("docid");
|
|
2228
|
}
|
|
2229
|
if (params.containsKey("principal")) {
|
|
2230
|
principalList = (String[]) params.get("principal");
|
|
2231
|
}
|
|
2232
|
if (params.containsKey("permission")) {
|
|
2233
|
permissionList = (String[]) params.get("permission");
|
|
2234
|
|
|
2235
|
}
|
|
2236
|
if (params.containsKey("permType")) {
|
|
2237
|
permTypeList = (String[]) params.get("permType");
|
|
2238
|
|
|
2239
|
}
|
|
2240
|
if (params.containsKey("permOrder")) {
|
|
2241
|
permOrderList = (String[]) params.get("permOrder");
|
|
2242
|
|
|
2243
|
}
|
|
2244
|
|
|
2245
|
// Make sure the parameter is not null
|
|
2246
|
if (docList == null || principalList == null || permTypeList == null
|
|
2247
|
|| permissionList == null) {
|
|
2248
|
error = "Please check your parameter list, it should look like: "
|
|
2249
|
+ "?action=setaccess&docid=pipeline.1.1&principal=public"
|
|
2250
|
+ "&permission=read&permType=allow&permOrder=allowFirst";
|
|
2251
|
errorList.addElement(error);
|
|
2252
|
outputResponse(successList, errorList, out);
|
|
2253
|
return;
|
|
2254
|
}
|
|
2255
|
|
|
2256
|
// Only select first element for permission, type and order
|
|
2257
|
permission = permissionList[0];
|
|
2258
|
permType = permTypeList[0];
|
|
2259
|
if (permOrderList != null) {
|
|
2260
|
permOrder = permOrderList[0];
|
|
2261
|
}
|
|
2262
|
|
|
2263
|
// Get package doctype set
|
|
2264
|
Vector packageSet = MetaCatUtil.getOptionList(MetaCatUtil
|
|
2265
|
.getOption("packagedoctypeset"));
|
|
2266
|
//debug
|
|
2267
|
if (packageSet != null) {
|
|
2268
|
for (int i = 0; i < packageSet.size(); i++) {
|
|
2269
|
MetaCatUtil.debugMessage("doctype in package set: "
|
|
2270
|
+ (String) packageSet.elementAt(i), 34);
|
|
2271
|
}
|
|
2272
|
}
|
|
2273
|
|
|
2274
|
// handle every accessionNumber
|
|
2275
|
for (int i = 0; i < docList.length; i++) {
|
|
2276
|
String accessionNumber = docList[i];
|
|
2277
|
String owner = null;
|
|
2278
|
String publicId = null;
|
|
2279
|
// Get document owner and public id
|
|
2280
|
try {
|
|
2281
|
owner = getFieldValueForDoc(accessionNumber, "user_owner");
|
|
2282
|
publicId = getFieldValueForDoc(accessionNumber, "doctype");
|
|
2283
|
} catch (Exception e) {
|
|
2284
|
MetaCatUtil.debugMessage("Error in handleSetAccessAction: "
|
|
2285
|
+ e.getMessage(), 30);
|
|
2286
|
error = "Error in set access control for document - "
|
|
2287
|
+ accessionNumber + e.getMessage();
|
|
2288
|
errorList.addElement(error);
|
|
2289
|
continue;
|
|
2290
|
}
|
|
2291
|
//check if user is the owner. Only owner can do owner
|
|
2292
|
if (username == null || owner == null || !username.equals(owner)) {
|
|
2293
|
error = "User - " + username
|
|
2294
|
+ " does not have permission to set "
|
|
2295
|
+ "access control for docid - " + accessionNumber;
|
|
2296
|
errorList.addElement(error);
|
|
2297
|
continue;
|
|
2298
|
}
|
|
2299
|
|
|
2300
|
// If docid publicid is BIN data file or other beta4, 6 package
|
|
2301
|
// document
|
|
2302
|
// we could not do set access control. Because we don't want
|
|
2303
|
// inconsistent
|
|
2304
|
// to its access docuemnt
|
|
2305
|
if (publicId != null && packageSet != null
|
|
2306
|
&& packageSet.contains(publicId)) {
|
|
2307
|
error = "Could not set access control to document "
|
|
2308
|
+ accessionNumber
|
|
2309
|
+ "because it is in a pakcage and it has a access file for it";
|
|
2310
|
errorList.addElement(error);
|
|
2311
|
continue;
|
|
2312
|
}
|
|
2313
|
|
|
2314
|
// for every principle
|
|
2315
|
for (int j = 0; j < principalList.length; j++) {
|
|
2316
|
String principal = principalList[j];
|
|
2317
|
try {
|
|
2318
|
//insert permission
|
|
2319
|
AccessControlForSingleFile accessControl = new AccessControlForSingleFile(
|
|
2320
|
accessionNumber, principal, permission, permType,
|
|
2321
|
permOrder);
|
|
2322
|
accessControl.insertPermissions();
|
|
2323
|
success = "Set access control to document "
|
|
2324
|
+ accessionNumber + " successfully";
|
|
2325
|
successList.addElement(success);
|
|
2326
|
} catch (Exception ee) {
|
|
2327
|
MetaCatUtil.debugMessage(
|
|
2328
|
"Erorr in handleSetAccessAction2: "
|
|
2329
|
+ ee.getMessage(), 30);
|
|
2330
|
error = "Faild to set access control for document "
|
|
2331
|
+ accessionNumber + " because " + ee.getMessage();
|
|
2332
|
errorList.addElement(error);
|
|
2333
|
continue;
|
|
2334
|
}
|
|
2335
|
}
|
|
2336
|
}
|
|
2337
|
outputResponse(successList, errorList, out);
|
|
2338
|
}
|
|
2339
|
|
|
2340
|
/*
|
|
2341
|
* A method try to determin a docid's public id, if couldn't find null will
|
|
2342
|
* be returned.
|
|
2343
|
*/
|
|
2344
|
private String getFieldValueForDoc(String accessionNumber, String fieldName)
|
|
2345
|
throws Exception
|
|
2346
|
{
|
|
2347
|
if (accessionNumber == null || accessionNumber.equals("")
|
|
2348
|
|| fieldName == null || fieldName.equals("")) { throw new Exception(
|
|
2349
|
"Docid or field name was not specified"); }
|
|
2350
|
|
|
2351
|
PreparedStatement pstmt = null;
|
|
2352
|
ResultSet rs = null;
|
|
2353
|
String fieldValue = null;
|
|
2354
|
String docId = null;
|
|
2355
|
DBConnection conn = null;
|
|
2356
|
int serialNumber = -1;
|
|
2357
|
|
|
2358
|
// get rid of revision if access number has
|
|
2359
|
docId = MetaCatUtil.getDocIdFromString(accessionNumber);
|
|
2360
|
try {
|
|
2361
|
//check out DBConnection
|
|
2362
|
conn = DBConnectionPool
|
|
2363
|
.getDBConnection("MetaCatServlet.getPublicIdForDoc");
|
|
2364
|
serialNumber = conn.getCheckOutSerialNumber();
|
|
2365
|
pstmt = conn.prepareStatement("SELECT " + fieldName
|
|
2366
|
+ " FROM xml_documents " + "WHERE docid = ? ");
|
|
2367
|
|
|
2368
|
pstmt.setString(1, docId);
|
|
2369
|
pstmt.execute();
|
|
2370
|
rs = pstmt.getResultSet();
|
|
2371
|
boolean hasRow = rs.next();
|
|
2372
|
int perm = 0;
|
|
2373
|
if (hasRow) {
|
|
2374
|
fieldValue = rs.getString(1);
|
|
2375
|
} else {
|
|
2376
|
throw new Exception("Could not find document: "
|
|
2377
|
+ accessionNumber);
|
|
2378
|
}
|
|
2379
|
} catch (Exception e) {
|
|
2380
|
MetaCatUtil.debugMessage(
|
|
2381
|
"Exception in MetacatServlet.getPublicIdForDoc: "
|
|
2382
|
+ e.getMessage(), 30);
|
|
2383
|
throw e;
|
|
2384
|
} finally {
|
|
2385
|
try {
|
|
2386
|
rs.close();
|
|
2387
|
pstmt.close();
|
|
2388
|
|
|
2389
|
} finally {
|
|
2390
|
DBConnectionPool.returnDBConnection(conn, serialNumber);
|
|
2391
|
}
|
|
2392
|
}
|
|
2393
|
return fieldValue;
|
|
2394
|
}
|
|
2395
|
|
|
2396
|
/*
|
|
2397
|
* A method to output setAccess action result
|
|
2398
|
*/
|
|
2399
|
private void outputResponse(Vector successList, Vector errorList,
|
|
2400
|
PrintWriter out)
|
|
2401
|
{
|
|
2402
|
boolean error = false;
|
|
2403
|
boolean success = false;
|
|
2404
|
// Output prolog
|
|
2405
|
out.println(PROLOG);
|
|
2406
|
// output success message
|
|
2407
|
if (successList != null) {
|
|
2408
|
for (int i = 0; i < successList.size(); i++) {
|
|
2409
|
out.println(SUCCESS);
|
|
2410
|
out.println((String) successList.elementAt(i));
|
|
2411
|
out.println(SUCCESSCLOSE);
|
|
2412
|
success = true;
|
|
2413
|
}
|
|
2414
|
}
|
|
2415
|
// output error message
|
|
2416
|
if (errorList != null) {
|
|
2417
|
for (int i = 0; i < errorList.size(); i++) {
|
|
2418
|
out.println(ERROR);
|
|
2419
|
out.println((String) errorList.elementAt(i));
|
|
2420
|
out.println(ERRORCLOSE);
|
|
2421
|
error = true;
|
|
2422
|
}
|
|
2423
|
}
|
|
2424
|
|
|
2425
|
// if no error and no success info, send a error that nothing happened
|
|
2426
|
if (!error && !success) {
|
|
2427
|
out.println(ERROR);
|
|
2428
|
out.println("Nothing happend for setaccess action");
|
|
2429
|
out.println(ERRORCLOSE);
|
|
2430
|
}
|
|
2431
|
}
|
|
2432
|
}
|