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daigle
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/**
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* '$RCSfile$'
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* Purpose: A Class that implements session utility methods
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* Copyright: 2008 Regents of the University of California and the
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* National Center for Ecological Analysis and Synthesis
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* Authors: Michael Daigle
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*
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* '$Author: daigle $'
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* '$Date: 2008-08-22 16:23:38 -0700 (Fri, 22 Aug 2008) $'
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* '$Revision: 4297 $'
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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.service;
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import java.io.IOException;
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import java.io.StringReader;
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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.Vector;
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import java.util.regex.Matcher;
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import java.util.regex.Pattern;
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import org.apache.log4j.Logger;
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import edu.ucsb.nceas.metacat.DBConnection;
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import edu.ucsb.nceas.metacat.DBConnectionPool;
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import edu.ucsb.nceas.metacat.DocumentImpl;
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import edu.ucsb.nceas.metacat.MetaCatServlet;
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import edu.ucsb.nceas.utilities.FileUtil;
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import edu.ucsb.nceas.utilities.PropertyNotFoundException;
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import edu.ucsb.nceas.utilities.StringUtil;
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4442
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daigle
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public class XMLSchemaService extends BaseService {
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4430
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daigle
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public static final String NAMESPACEKEYWORD = "xmlns";
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public static final String SCHEMA_DIR = "/schema/";
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private static XMLSchemaService xmlSchemaService = null;
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private static Logger logMetacat = Logger.getLogger(XMLSchemaService.class);
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private static boolean useFullSchemaValidation = false;
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private static String documentNamespace = null;
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// all schema objects that represent schemas registered in the db that
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// actually have files on disk.
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private static Vector<XMLSchema> registeredSchemaList = new Vector<XMLSchema>();
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// a convenience list that holds the names of registered namespaces.
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private static Vector<String> nameSpaceList = new Vector<String>();
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// a convenience string that holds all name spaces and locations in a space
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// delimited format
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private static String nameSpaceAndLocationString = "";
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/**
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* private constructor since this is a singleton
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*/
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private XMLSchemaService() {
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try {
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setUseFullSchemaValidation();
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populateRegisteredSchemaList();
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createRegisteredNameSpaceList();
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createRegisteredNameSpaceAndLocationString();
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} catch (PropertyNotFoundException pnfe) {
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logMetacat.error("Could not find property: xml.useFullSchemaValidation. " +
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"Setting to false.");
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}
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}
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/**
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* Get the single instance of XMLService.
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*
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* @return the single instance of XMLService
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*/
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public static XMLSchemaService getInstance() {
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if (xmlSchemaService == null) {
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xmlSchemaService = new XMLSchemaService();
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}
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return xmlSchemaService;
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}
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daigle
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public boolean refreshable() {
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return true;
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}
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daigle
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/**
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* refresh the persistant values in this service.
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*/
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protected void doRefresh() {
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daigle
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try {
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populateRegisteredSchemaList();
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setUseFullSchemaValidation();
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createRegisteredNameSpaceList();
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createRegisteredNameSpaceAndLocationString();
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} catch (PropertyNotFoundException pnfe) {
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logMetacat.error("Could not find property: xml.useFullSchemaValidation. " +
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"Setting to false.");
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}
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}
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/**
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* Gets the registered schema list. This list holds schemas that exist in
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* the xml_catalog table that also have associated files in the schema
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* directory.
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*
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* @return a list of XMLSchema objects holding registered schema information
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*/
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public static Vector<XMLSchema> getRegisteredSchemaList() {
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return registeredSchemaList;
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}
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/**
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* Gets the name space and location string. This is a convenience method.
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* The string will have space delimited namespaces and locations that are
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* held in the registered schema list.
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*
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* @return a string that holds space delimited registered namespaces and
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* locations.
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*/
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public static String getNameSpaceAndLocationString() {
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return nameSpaceAndLocationString;
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}
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/**
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* Gets a list of name spaces. This is a convenience method. The list will
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* have all namespaces that are held in the registered schema list.
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*
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* @return a list that holds registered namespaces.
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*/
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public static Vector<String> getNameSpaceList() {
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return nameSpaceList;
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}
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/**
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* Report whether xml parsing is set to use full schema parsing. If full
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* schema parsing is true, new schemas will be validated before being
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* entered into the database and file system.
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*
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* @return true if the xml.useFullSchemaValidation property is set to true,
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* false otherwise.
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*/
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public static boolean useFullSchemaValidation() {
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return useFullSchemaValidation;
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}
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/**
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* sets the UseFullSchemaValidation variable. The only way this should be
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* set is in the constructor or the refresh methods.
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*/
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private static void setUseFullSchemaValidation() throws PropertyNotFoundException {
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String strUseFullSchemaValidation =
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PropertyService.getProperty("xml.useFullSchemaValidation");
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useFullSchemaValidation = Boolean.valueOf(strUseFullSchemaValidation);
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}
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/**
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* Populate the list of registered schemas. This reads all schemas in the
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* xml_catalog table and then makes sure the schema actually exists and is
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* readable on disk.
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*/
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public static void populateRegisteredSchemaList() {
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DBConnection conn = null;
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int serialNumber = -1;
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PreparedStatement pstmt = null;
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ResultSet resultSet = null;
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registeredSchemaList = new Vector<XMLSchema>();
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// get the system id from the xml_catalog table for all schemas.
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String sql = "SELECT public_id, system_id FROM xml_catalog where "
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+ "entry_type ='" + DocumentImpl.SCHEMA + "'";
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try {
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// check out DBConnection
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conn = DBConnectionPool
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.getDBConnection("XMLService.populateRegisteredSchemaList");
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serialNumber = conn.getCheckOutSerialNumber();
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pstmt = conn.prepareStatement(sql);
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pstmt.execute();
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resultSet = pstmt.getResultSet();
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// make sure the schema actually exists on the file system. If so,
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// add it
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// to the registered schema list.
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while (resultSet.next()) {
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String fileNamespace = resultSet.getString(1);
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String fileLocation = resultSet.getString(2);
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XMLSchema xmlSchema = new XMLSchema(fileNamespace);
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xmlSchema.setFileName(fileLocation);
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if (FileUtil.getFileStatus(xmlSchema.getLocalFileDir()) >= FileUtil.EXISTS_READABLE) {
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registeredSchemaList.add(xmlSchema);
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} else {
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logMetacat.warn("Schema file: " + fileLocation + " is registered "
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+ " in the database but does not exist on the file system.");
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}
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}
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} catch (SQLException e) {
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logMetacat.error("XMLService.populateRegisteredSchemaList(): "
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+ e.getMessage());
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} finally {
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try {
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pstmt.close();
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}// try
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catch (SQLException sqlE) {
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logMetacat.error("Error in XMLService.populateRegisteredSchemaList(): "
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+ sqlE.getMessage());
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}
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DBConnectionPool.returnDBConnection(conn, serialNumber);
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}
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}
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/**
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* create a space delimited string of all namespaces and locations
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* in the registered schema list.
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*/
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private static void createRegisteredNameSpaceAndLocationString() {
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boolean firstRow = true;
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nameSpaceAndLocationString = "";
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daigle
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for (XMLSchema xmlSchema : registeredSchemaList) {
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if (!firstRow) {
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nameSpaceAndLocationString += " ";
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}
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nameSpaceAndLocationString += xmlSchema.getFileNamespace() + " "
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+ xmlSchema.getLocalFileUri();
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firstRow = false;
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}
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}
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/**
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* create a lsit of all namespaces in the registered schema list.
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*/
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private static void createRegisteredNameSpaceList() {
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nameSpaceList = new Vector<String>();
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for (XMLSchema xmlSchema : registeredSchemaList) {
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nameSpaceList.add(xmlSchema.getFileNamespace());
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}
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}
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/**
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* Checks to see that all schemas are registered. If a single one in the
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* list is not, this will return false.
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*
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* @param schemaList
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* a list of schemas as they appear in xml.
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* @return true if all schemas are registered.
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*/
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public static boolean areAllSchemasRegistered(Vector<XMLSchema> schemaList) {
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for (XMLSchema xmlSchema : schemaList) {
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if ( ! isSchemaRegistered(xmlSchema)) {
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return false;
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}
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}
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return true;
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}
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/**
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* Returns true if the schema is registered.
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*
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* @param schema
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* a single schema as it appears in xml
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* @return true if the schema is registered, false otherwise.
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*/
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public static boolean isSchemaRegistered(XMLSchema xmlSchema) {
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for (XMLSchema registeredXmlSchema : registeredSchemaList) {
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if (registeredXmlSchema.getLocalFileUri().equals(
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xmlSchema.getLocalFileUri())
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&& registeredXmlSchema.getFileNamespace().equals(
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xmlSchema.getFileNamespace())) {
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return true;
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}
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}
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return false;
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}
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/**
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* See if schemas have been specified in the xml:schemalocation attribute.
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* If so, return a vector of the system ids.
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*
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* @param xml
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* the document we want to look in for schema location
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* @return a vector of XMLSchema objects, or an empty vector if none are
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* found
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*/
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public static Vector<XMLSchema> findSchemasInXML(StringReader xml) throws IOException {
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Logger logMetacat = Logger.getLogger(MetaCatServlet.class);
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Vector<XMLSchema> schemaList = new Vector<XMLSchema>();
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// no xml. return empty vector
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if (xml == null) {
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logMetacat.debug("Returning empty schemaList.");
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return schemaList;
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}
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// Get the "second line" from the xml
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String targetLine = getSchemaLine(xml);
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// see if there is a match for xsi.schemaLocation. If so, extract the
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// schemas.
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if (targetLine != null) {
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String regex = "(\\p{Graph}*):schemaLocation=\"(.*)\"";
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Pattern pattern = Pattern.compile(regex, Pattern.CASE_INSENSITIVE
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| Pattern.DOTALL);
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Matcher matcher = pattern.matcher(targetLine);
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int i = 0;
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while (i < targetLine.length()) {
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if (!matcher.find(i)) {
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break;
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}
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String uri = matcher.group(2);
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uri = StringUtil.replaceTabsNewLines(uri);
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uri = StringUtil.replaceDuplicateSpaces(uri);
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// each namespace could have several schema locations. parsedUri
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// will hold a list of uri and files.
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Vector<String> parsedUri = StringUtil.toVector(uri, ' ');
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for (int j = 0; j < parsedUri.size(); j = j + 2) {
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if (j + 1 >= parsedUri.size()) {
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throw new IOException(
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"Odd number of elements found when parsing schema location: "
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+ targetLine
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+ ". There should be an even number of uri/files in location.");
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}
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XMLSchema xmlSchema = new XMLSchema(parsedUri.get(j), parsedUri
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.get(j + 1));
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schemaList.add(xmlSchema);
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}
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i = matcher.end();
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}
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}
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logMetacat.debug("Schemas for eml are " + schemaList.toString());
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return schemaList;
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}
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/**
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* Returns all the namespace for an xml document. This is done by getting
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* the internal namespace declaration (prefix) and looking for xmlns:<prefix>
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*
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* @param xml
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362 |
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* the document to search
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* @return a string holding the namespace
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364 |
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*/
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365 |
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public static String findDocumentNamespace(StringReader xml) throws IOException {
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366 |
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String namespace = null;
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367 |
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368 |
|
|
String eml2_0_0NameSpace = DocumentImpl.EML2_0_0NAMESPACE;
|
369 |
|
|
String eml2_0_1NameSpace = DocumentImpl.EML2_0_1NAMESPACE;
|
370 |
|
|
String eml2_1_0NameSpace = DocumentImpl.EML2_1_0NAMESPACE;
|
371 |
|
|
|
372 |
|
|
if (xml == null) {
|
373 |
|
|
logMetacat.debug("XML doc is null. There is no namespace.");
|
374 |
|
|
return namespace;
|
375 |
|
|
}
|
376 |
|
|
|
377 |
|
|
String targetLine = getSchemaLine(xml);
|
378 |
|
|
|
379 |
|
|
// the prefix is at the beginning of the doc
|
380 |
|
|
String prefix = null;
|
381 |
4474
|
daigle
|
String regex1 = "^\\s*(\\p{Graph}+):\\p{Graph}* ";
|
382 |
4430
|
daigle
|
Pattern pattern = Pattern.compile(regex1, Pattern.CASE_INSENSITIVE);
|
383 |
|
|
Matcher matcher = pattern.matcher(targetLine);
|
384 |
|
|
if (matcher.find()) {
|
385 |
|
|
prefix = matcher.group(1).trim();
|
386 |
|
|
}
|
387 |
|
|
|
388 |
|
|
// if a prefix was found, we are looking for xmlns:<prefix>="namespace"
|
389 |
|
|
// if no prefix was found, we grab the first namespace.
|
390 |
|
|
String regex2;
|
391 |
|
|
if (prefix != null) {
|
392 |
|
|
regex2 = "xmlns:" + prefix + "=\"(.*)\"";
|
393 |
|
|
} else {
|
394 |
|
|
regex2 = "xmlns:.*=\"(.*)\"";
|
395 |
|
|
}
|
396 |
|
|
Pattern pattern2 = Pattern.compile(regex2, Pattern.CASE_INSENSITIVE);
|
397 |
|
|
Matcher matcher2 = pattern2.matcher(targetLine);
|
398 |
|
|
if (matcher2.find()) {
|
399 |
|
|
namespace = matcher2.group(1);
|
400 |
|
|
|
401 |
|
|
if (namespace.indexOf(eml2_0_0NameSpace) != -1) {
|
402 |
|
|
namespace = eml2_0_0NameSpace;
|
403 |
|
|
} else if (namespace.indexOf(eml2_0_1NameSpace) != -1) {
|
404 |
|
|
namespace = eml2_0_1NameSpace;
|
405 |
|
|
} else if (namespace.indexOf(eml2_1_0NameSpace) != -1) {
|
406 |
|
|
namespace = eml2_1_0NameSpace;
|
407 |
|
|
}
|
408 |
|
|
}
|
409 |
|
|
|
410 |
|
|
return namespace;
|
411 |
|
|
}
|
412 |
|
|
|
413 |
|
|
/**
|
414 |
|
|
* Return the line from xml that holds the metadata like namespace and
|
415 |
|
|
* schema location
|
416 |
|
|
*
|
417 |
|
|
* @param xml
|
418 |
|
|
* the document to parse
|
419 |
|
|
* @return the "second" line of the document
|
420 |
|
|
*/
|
421 |
|
|
private static String getSchemaLine(StringReader xml) throws IOException {
|
422 |
|
|
Logger logMetacat = Logger.getLogger(MetaCatServlet.class);
|
423 |
|
|
// find the line
|
424 |
|
|
String secondLine = null;
|
425 |
|
|
int count = 0;
|
426 |
|
|
final int TARGETNUM = 1;
|
427 |
|
|
StringBuffer buffer = new StringBuffer();
|
428 |
|
|
boolean comment = false;
|
429 |
|
|
boolean processingInstruction = false;
|
430 |
|
|
char thirdPreviousCharacter = '?';
|
431 |
|
|
char secondPreviousCharacter = '?';
|
432 |
|
|
char previousCharacter = '?';
|
433 |
|
|
char currentCharacter = '?';
|
434 |
|
|
int tmp = xml.read();
|
435 |
|
|
while (tmp != -1) {
|
436 |
|
|
currentCharacter = (char)tmp;
|
437 |
|
|
//in a comment
|
438 |
|
|
if (currentCharacter == '-' && previousCharacter == '-'
|
439 |
|
|
&& secondPreviousCharacter == '!'
|
440 |
|
|
&& thirdPreviousCharacter == '<') {
|
441 |
|
|
comment = true;
|
442 |
|
|
}
|
443 |
|
|
//out of comment
|
444 |
|
|
if (comment && currentCharacter == '>' && previousCharacter == '-'
|
445 |
|
|
&& secondPreviousCharacter == '-') {
|
446 |
|
|
comment = false;
|
447 |
|
|
}
|
448 |
|
|
|
449 |
|
|
//in a processingInstruction
|
450 |
|
|
if (currentCharacter == '?' && previousCharacter == '<') {
|
451 |
|
|
processingInstruction = true;
|
452 |
|
|
}
|
453 |
|
|
|
454 |
|
|
//out of processingInstruction
|
455 |
|
|
if (processingInstruction && currentCharacter == '>'
|
456 |
|
|
&& previousCharacter == '?') {
|
457 |
|
|
processingInstruction = false;
|
458 |
|
|
}
|
459 |
|
|
|
460 |
|
|
//this is not comment or a processingInstruction
|
461 |
|
|
if (currentCharacter != '!' && previousCharacter == '<'
|
462 |
|
|
&& !comment && !processingInstruction) {
|
463 |
|
|
count++;
|
464 |
|
|
}
|
465 |
|
|
|
466 |
|
|
// get target line
|
467 |
|
|
if (count == TARGETNUM && currentCharacter != '>') {
|
468 |
|
|
buffer.append(currentCharacter);
|
469 |
|
|
}
|
470 |
|
|
if (count == TARGETNUM && currentCharacter == '>') {
|
471 |
|
|
break;
|
472 |
|
|
}
|
473 |
|
|
thirdPreviousCharacter = secondPreviousCharacter;
|
474 |
|
|
secondPreviousCharacter = previousCharacter;
|
475 |
|
|
previousCharacter = currentCharacter;
|
476 |
|
|
tmp = xml.read();
|
477 |
|
|
}
|
478 |
|
|
secondLine = buffer.toString();
|
479 |
|
|
logMetacat.debug("the second line string is: " + secondLine);
|
480 |
|
|
|
481 |
|
|
xml.reset();
|
482 |
|
|
return secondLine;
|
483 |
|
|
}
|
484 |
|
|
|
485 |
|
|
/**
|
486 |
|
|
* Get a schema file name from the schema uri.
|
487 |
|
|
*
|
488 |
|
|
* @param uri
|
489 |
|
|
* the uri from which to extract the file name
|
490 |
|
|
* @return a string holding the file name
|
491 |
|
|
*/
|
492 |
|
|
public static String getSchemaFileNameFromUri(String uri) {
|
493 |
|
|
// get filename from systemId
|
494 |
|
|
String filename = uri;
|
495 |
|
|
|
496 |
|
|
if (filename != null && !(filename.trim()).equals("")) {
|
497 |
|
|
int slash = Math.max(filename.lastIndexOf('/'), filename.lastIndexOf('\\'));
|
498 |
|
|
if (slash > -1) {
|
499 |
|
|
filename = filename.substring(slash + 1);
|
500 |
|
|
}
|
501 |
|
|
}
|
502 |
|
|
|
503 |
|
|
return filename;
|
504 |
|
|
}
|
505 |
|
|
}
|