1 |
2169
|
sgarg
|
/**
|
2 |
|
|
* '$RCSfile$'
|
3 |
|
|
* Purpose: A Class that handles the SAX XML events as they
|
4 |
|
|
* are generated from XML documents
|
5 |
|
|
* Copyright: 2000 Regents of the University of California and the
|
6 |
|
|
* National Center for Ecological Analysis and Synthesis
|
7 |
|
|
* Authors: Matt Jones, Jivka Bojilova
|
8 |
|
|
*
|
9 |
|
|
* '$Author$'
|
10 |
|
|
* '$Date$'
|
11 |
|
|
* '$Revision$'
|
12 |
|
|
*
|
13 |
|
|
* This program is free software; you can redistribute it and/or modify
|
14 |
|
|
* it under the terms of the GNU General Public License as published by
|
15 |
|
|
* the Free Software Foundation; either version 2 of the License, or
|
16 |
|
|
* (at your option) any later version.
|
17 |
|
|
*
|
18 |
|
|
* This program is distributed in the hope that it will be useful,
|
19 |
|
|
* but WITHOUT ANY WARRANTY; without even the implied warranty of
|
20 |
|
|
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
|
21 |
|
|
* GNU General Public License for more details.
|
22 |
|
|
*
|
23 |
|
|
* You should have received a copy of the GNU General Public License
|
24 |
|
|
* along with this program; if not, write to the Free Software
|
25 |
|
|
* Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
|
26 |
|
|
*/
|
27 |
|
|
|
28 |
|
|
package edu.ucsb.nceas.metacat;
|
29 |
|
|
|
30 |
|
|
import java.io.File;
|
31 |
5752
|
leinfelder
|
import java.io.FileOutputStream;
|
32 |
2169
|
sgarg
|
import java.io.IOException;
|
33 |
5752
|
leinfelder
|
import java.io.OutputStreamWriter;
|
34 |
|
|
import java.io.Writer;
|
35 |
2169
|
sgarg
|
import java.sql.PreparedStatement;
|
36 |
|
|
import java.sql.ResultSet;
|
37 |
|
|
import java.sql.SQLException;
|
38 |
6595
|
leinfelder
|
import java.util.Date;
|
39 |
2169
|
sgarg
|
import java.util.EmptyStackException;
|
40 |
|
|
import java.util.Enumeration;
|
41 |
|
|
import java.util.Hashtable;
|
42 |
|
|
import java.util.Stack;
|
43 |
|
|
import java.util.Vector;
|
44 |
|
|
|
45 |
2663
|
sgarg
|
import org.apache.log4j.Logger;
|
46 |
2169
|
sgarg
|
import org.xml.sax.Attributes;
|
47 |
|
|
import org.xml.sax.SAXException;
|
48 |
|
|
|
49 |
7475
|
leinfelder
|
import edu.ucsb.nceas.utilities.access.AccessControlInterface;
|
50 |
5090
|
daigle
|
import edu.ucsb.nceas.metacat.accesscontrol.AccessRule;
|
51 |
|
|
import edu.ucsb.nceas.metacat.accesscontrol.AccessSection;
|
52 |
5015
|
daigle
|
import edu.ucsb.nceas.metacat.database.DBConnection;
|
53 |
|
|
import edu.ucsb.nceas.metacat.database.DBConnectionPool;
|
54 |
6802
|
leinfelder
|
import edu.ucsb.nceas.metacat.dataone.hazelcast.HazelcastService;
|
55 |
5030
|
daigle
|
import edu.ucsb.nceas.metacat.properties.PropertyService;
|
56 |
5025
|
daigle
|
import edu.ucsb.nceas.metacat.util.DocumentUtil;
|
57 |
4698
|
daigle
|
import edu.ucsb.nceas.metacat.util.MetacatUtil;
|
58 |
4080
|
daigle
|
import edu.ucsb.nceas.utilities.PropertyNotFoundException;
|
59 |
|
|
|
60 |
2169
|
sgarg
|
/**
|
61 |
4472
|
daigle
|
* A database aware Class implementing callback methods for the SAX parser to
|
62 |
2169
|
sgarg
|
* call when processing the XML stream and generating events
|
63 |
|
|
*/
|
64 |
4678
|
daigle
|
public class Eml210SAXHandler extends DBSAXHandler implements AccessControlInterface {
|
65 |
2169
|
sgarg
|
|
66 |
5311
|
daigle
|
private boolean processingTopLevelAccess = false;
|
67 |
2169
|
sgarg
|
|
68 |
5311
|
daigle
|
private boolean processingAdditionalAccess = false;
|
69 |
2169
|
sgarg
|
|
70 |
5311
|
daigle
|
private boolean processingOtherAccess = false;
|
71 |
2169
|
sgarg
|
|
72 |
4678
|
daigle
|
private AccessSection accessObject = null;
|
73 |
2169
|
sgarg
|
|
74 |
4678
|
daigle
|
private AccessRule accessRule = null;
|
75 |
2169
|
sgarg
|
|
76 |
5311
|
daigle
|
// all access rules
|
77 |
|
|
private Vector<AccessSection> accessObjectList = new Vector<AccessSection>();
|
78 |
2169
|
sgarg
|
|
79 |
4678
|
daigle
|
private Hashtable<String, AccessSection> topLevelAccessControlMap = new Hashtable<String, AccessSection>();
|
80 |
2169
|
sgarg
|
|
81 |
5311
|
daigle
|
// subtree access for additionalmetadata
|
82 |
|
|
private Hashtable<String, AccessSection> additionalAccessControlMap = new Hashtable<String, AccessSection>();
|
83 |
|
|
|
84 |
|
|
|
85 |
|
|
private Vector<Hashtable<String, AccessSection>> additionalAccessMapList = new Vector<Hashtable<String, AccessSection>>();
|
86 |
|
|
|
87 |
|
|
// ids from additionalmetadata/describes
|
88 |
|
|
private Vector<String> describesId = new Vector<String>();
|
89 |
|
|
|
90 |
4678
|
daigle
|
private Stack<SubTree> subTreeInfoStack = new Stack<SubTree>();
|
91 |
2169
|
sgarg
|
|
92 |
5311
|
daigle
|
private Vector<SubTree> subTreeList = new Vector<SubTree>();
|
93 |
4678
|
daigle
|
|
94 |
|
|
private boolean needToCheckAccessModule = false;
|
95 |
2169
|
sgarg
|
|
96 |
4678
|
daigle
|
private Vector<AccessSection> unChangeableAccessSubTreeVector = new Vector<AccessSection>();
|
97 |
2169
|
sgarg
|
|
98 |
4678
|
daigle
|
private Stack<NodeRecord> currentUnchangeableAccessModuleNodeStack = new Stack<NodeRecord>();
|
99 |
2169
|
sgarg
|
|
100 |
4678
|
daigle
|
private AccessSection topAccessSection;
|
101 |
2169
|
sgarg
|
|
102 |
4678
|
daigle
|
// we need an another stack to store the access node which we pull out just
|
103 |
|
|
// from xml. If a reference happened, we can use the stack the compare nodes
|
104 |
|
|
private Stack<NodeRecord> storedAccessNodeStack = new Stack<NodeRecord>();
|
105 |
2169
|
sgarg
|
|
106 |
4678
|
daigle
|
// vector stored the data file id which will be write into relation table
|
107 |
|
|
private Vector<String> onlineDataFileIdInRelationVector = new Vector<String>();
|
108 |
2169
|
sgarg
|
|
109 |
4678
|
daigle
|
// vector stored the data file id which will be write top access rules to
|
110 |
|
|
// access table
|
111 |
|
|
private Vector<String> onlineDataFileIdInTopAccessVector = new Vector<String>();
|
112 |
2169
|
sgarg
|
|
113 |
4678
|
daigle
|
// Indicator of inline data
|
114 |
|
|
private boolean handleInlineData = false;
|
115 |
2169
|
sgarg
|
|
116 |
4678
|
daigle
|
private Hashtable<String, String> inlineDataNameSpace = null;
|
117 |
2169
|
sgarg
|
|
118 |
5752
|
leinfelder
|
private Writer inlineDataFileWriter = null;
|
119 |
2169
|
sgarg
|
|
120 |
4678
|
daigle
|
private String inlineDataFileName = null;
|
121 |
2169
|
sgarg
|
|
122 |
4678
|
daigle
|
DistributionSection currentDistributionSection = null;
|
123 |
2169
|
sgarg
|
|
124 |
4678
|
daigle
|
Vector<DistributionSection> allDistributionSections = new Vector<DistributionSection>();
|
125 |
8560
|
slaughter
|
private Vector<String> guidsToSync;
|
126 |
4678
|
daigle
|
|
127 |
|
|
// This variable keeps a counter of each distribution element. This index
|
128 |
|
|
// will be used to name the inline data file that gets written to disk, and to
|
129 |
|
|
// strip inline data from the metadata document on file if the user does not have
|
130 |
|
|
// read access.
|
131 |
4472
|
daigle
|
private int distributionIndex = 0;
|
132 |
2169
|
sgarg
|
|
133 |
4678
|
daigle
|
// private String distributionOnlineFileName = null;
|
134 |
|
|
|
135 |
4472
|
daigle
|
// This is used to delete inline files if the xml does not parse correctly.
|
136 |
4678
|
daigle
|
private Vector<String> inlineFileIdList = new Vector<String>();
|
137 |
2169
|
sgarg
|
|
138 |
4678
|
daigle
|
// Constant
|
139 |
|
|
private static final String EML = "eml";
|
140 |
2169
|
sgarg
|
|
141 |
4678
|
daigle
|
private static final String DISTRIBUTION = "distribution";
|
142 |
2169
|
sgarg
|
|
143 |
4678
|
daigle
|
private static final String ORDER = "order";
|
144 |
2169
|
sgarg
|
|
145 |
4678
|
daigle
|
private static final String ID = "id";
|
146 |
2169
|
sgarg
|
|
147 |
4678
|
daigle
|
private static final String REFERENCES = "references";
|
148 |
2169
|
sgarg
|
|
149 |
4678
|
daigle
|
public static final String INLINE = "inline";
|
150 |
2169
|
sgarg
|
|
151 |
4678
|
daigle
|
private static final String ONLINE = "online";
|
152 |
2169
|
sgarg
|
|
153 |
4678
|
daigle
|
private static final String URL = "url";
|
154 |
2169
|
sgarg
|
|
155 |
4678
|
daigle
|
// private static final String PERMISSIONERROR = "User tried to update a
|
156 |
|
|
// subtree "
|
157 |
|
|
// + "when they don't have write permission!";
|
158 |
2169
|
sgarg
|
|
159 |
4678
|
daigle
|
private static final String UPDATEACCESSERROR = "User tried to update an "
|
160 |
|
|
+ "access module when they don't have \"ALL\" permission!";
|
161 |
2169
|
sgarg
|
|
162 |
4678
|
daigle
|
private static final String TOPLEVEL = "top";
|
163 |
2169
|
sgarg
|
|
164 |
4678
|
daigle
|
private static final String SUBTREELEVEL = "subtree";
|
165 |
2169
|
sgarg
|
|
166 |
4678
|
daigle
|
private static final String RELATION = "Provides info for";
|
167 |
2663
|
sgarg
|
|
168 |
4678
|
daigle
|
private Logger logMetacat = Logger.getLogger(Eml210SAXHandler.class);
|
169 |
2169
|
sgarg
|
|
170 |
4678
|
daigle
|
/**
|
171 |
|
|
* Construct an instance of the handler class In this constructor, user can
|
172 |
|
|
* specify the version need to update
|
173 |
|
|
*
|
174 |
|
|
* @param conn
|
175 |
|
|
* the JDBC connection to which information is written
|
176 |
|
|
* @param action -
|
177 |
|
|
* "INSERT" or "UPDATE"
|
178 |
|
|
* @param docid
|
179 |
|
|
* to be inserted or updated into JDBC connection
|
180 |
|
|
* @param revision,
|
181 |
|
|
* the user specified the revision need to be update
|
182 |
|
|
* @param user
|
183 |
|
|
* the user connected to MetaCat servlet and owns the document
|
184 |
|
|
* @param groups
|
185 |
|
|
* the groups to which user belongs
|
186 |
|
|
* @param pub
|
187 |
|
|
* flag for public "read" access on document
|
188 |
|
|
* @param serverCode
|
189 |
|
|
* the serverid from xml_replication on which this document
|
190 |
|
|
* resides.
|
191 |
|
|
*
|
192 |
|
|
*/
|
193 |
|
|
public Eml210SAXHandler(DBConnection conn, String action, String docid,
|
194 |
|
|
String revision, String user, String[] groups, String pub, int serverCode,
|
195 |
8560
|
slaughter
|
Date createDate, Date updateDate, boolean writeAccessRules, Vector<String> guidsToSync) throws SAXException {
|
196 |
4678
|
daigle
|
super(conn, action, docid, revision, user, groups, pub, serverCode, createDate,
|
197 |
7128
|
leinfelder
|
updateDate, writeAccessRules);
|
198 |
8560
|
slaughter
|
|
199 |
|
|
this.guidsToSync = guidsToSync;
|
200 |
4678
|
daigle
|
// Get the unchangeable subtrees (user doesn't have write permission)
|
201 |
|
|
try {
|
202 |
2169
|
sgarg
|
|
203 |
6744
|
leinfelder
|
if (action.equals("UPDATE")) {
|
204 |
|
|
// If the action is update and user doesn't have "ALL" permission
|
205 |
|
|
// we need to check if user can update access subtree
|
206 |
|
|
int latestRevision = DBUtil.getLatestRevisionInDocumentTable(docid);
|
207 |
|
|
String previousDocid =
|
208 |
|
|
docid + PropertyService.getProperty("document.accNumSeparator") + latestRevision;
|
209 |
|
|
|
210 |
|
|
PermissionController control = new PermissionController(previousDocid );
|
211 |
|
|
if (!control.hasPermission(user, groups, AccessControlInterface.ALLSTRING)
|
212 |
|
|
&& action != null) {
|
213 |
|
|
needToCheckAccessModule = true;
|
214 |
|
|
unChangeableAccessSubTreeVector = getAccessSubTreeListFromDB();
|
215 |
|
|
}
|
216 |
4678
|
daigle
|
}
|
217 |
|
|
|
218 |
|
|
} catch (Exception e) {
|
219 |
|
|
throw new SAXException(e.getMessage());
|
220 |
|
|
}
|
221 |
|
|
}
|
222 |
|
|
|
223 |
|
|
/*
|
224 |
|
|
* Get the subtree node info from xml_accesssubtree table
|
225 |
|
|
*/
|
226 |
|
|
private Vector<AccessSection> getAccessSubTreeListFromDB() throws Exception {
|
227 |
|
|
Vector<AccessSection> result = new Vector<AccessSection>();
|
228 |
|
|
PreparedStatement pstmt = null;
|
229 |
|
|
ResultSet rs = null;
|
230 |
|
|
String sql = "SELECT controllevel, subtreeid, startnodeid, endnodeid "
|
231 |
|
|
+ "FROM xml_accesssubtree WHERE docid like ? "
|
232 |
|
|
+ "ORDER BY startnodeid ASC";
|
233 |
2169
|
sgarg
|
|
234 |
4678
|
daigle
|
try {
|
235 |
2169
|
sgarg
|
|
236 |
4678
|
daigle
|
pstmt = connection.prepareStatement(sql);
|
237 |
|
|
// Increase DBConnection usage count
|
238 |
|
|
connection.increaseUsageCount(1);
|
239 |
|
|
// Bind the values to the query
|
240 |
|
|
pstmt.setString(1, docid);
|
241 |
|
|
pstmt.execute();
|
242 |
2169
|
sgarg
|
|
243 |
4678
|
daigle
|
// Get result set
|
244 |
|
|
rs = pstmt.getResultSet();
|
245 |
|
|
while (rs.next()) {
|
246 |
|
|
String level = rs.getString(1);
|
247 |
|
|
String sectionId = rs.getString(2);
|
248 |
|
|
long startNodeId = rs.getLong(3);
|
249 |
|
|
long endNodeId = rs.getLong(4);
|
250 |
|
|
// create a new access section
|
251 |
|
|
AccessSection accessObj = new AccessSection();
|
252 |
|
|
accessObj.setControlLevel(level);
|
253 |
|
|
accessObj.setDocId(docid);
|
254 |
|
|
accessObj.setSubTreeId(sectionId);
|
255 |
|
|
accessObj.setStartNodeId(startNodeId);
|
256 |
|
|
accessObj.setEndNodeId(endNodeId);
|
257 |
|
|
Stack<NodeRecord> nodeStack = accessObj.getSubTreeNodeStack();
|
258 |
|
|
accessObj.setSubTreeNodeStack(nodeStack);
|
259 |
|
|
// add this access obj into vector
|
260 |
|
|
result.add(accessObj);
|
261 |
|
|
// Get the top level access subtree control
|
262 |
|
|
if (level != null && level.equals(TOPLEVEL)) {
|
263 |
|
|
topAccessSection = accessObj;
|
264 |
|
|
}
|
265 |
|
|
}
|
266 |
|
|
pstmt.close();
|
267 |
|
|
}// try
|
268 |
|
|
catch (SQLException e) {
|
269 |
|
|
throw new SAXException("EMLSAXHandler.getAccessSubTreeListFromDB(): "
|
270 |
|
|
+ e.getMessage());
|
271 |
|
|
}// catch
|
272 |
|
|
finally {
|
273 |
|
|
try {
|
274 |
|
|
pstmt.close();
|
275 |
|
|
} catch (SQLException ee) {
|
276 |
|
|
throw new SAXException("EMLSAXHandler.getAccessSubTreeListFromDB(): "
|
277 |
|
|
+ ee.getMessage());
|
278 |
|
|
}
|
279 |
|
|
}// finally
|
280 |
|
|
return result;
|
281 |
|
|
}
|
282 |
2169
|
sgarg
|
|
283 |
4678
|
daigle
|
/** SAX Handler that is called at the start of each XML element */
|
284 |
|
|
public void startElement(String uri, String localName, String qName, Attributes atts)
|
285 |
|
|
throws SAXException {
|
286 |
|
|
// for element <eml:eml...> qname is "eml:eml", local name is "eml"
|
287 |
|
|
// for element <acl....> both qname and local name is "eml"
|
288 |
|
|
// uri is namesapce
|
289 |
|
|
logMetacat.debug("Start ELEMENT(qName) " + qName);
|
290 |
|
|
logMetacat.debug("Start ELEMENT(localName) " + localName);
|
291 |
|
|
logMetacat.debug("Start ELEMENT(uri) " + uri);
|
292 |
2169
|
sgarg
|
|
293 |
4678
|
daigle
|
DBSAXNode parentNode = null;
|
294 |
|
|
DBSAXNode currentNode = null;
|
295 |
2169
|
sgarg
|
|
296 |
4678
|
daigle
|
if (!handleInlineData) {
|
297 |
|
|
// Get a reference to the parent node for the id
|
298 |
|
|
try {
|
299 |
|
|
parentNode = (DBSAXNode) nodeStack.peek();
|
300 |
|
|
} catch (EmptyStackException e) {
|
301 |
|
|
parentNode = null;
|
302 |
|
|
}
|
303 |
2169
|
sgarg
|
|
304 |
4678
|
daigle
|
// start handle inline data
|
305 |
|
|
if (localName.equals(INLINE)) {
|
306 |
|
|
handleInlineData = true;
|
307 |
|
|
// initialize namespace hash for in line data
|
308 |
|
|
inlineDataNameSpace = new Hashtable<String, String>();
|
309 |
|
|
// initialize file writer
|
310 |
5025
|
daigle
|
String docidWithoutRev = DocumentUtil.getDocIdFromString(docid);
|
311 |
4678
|
daigle
|
String seperator = ".";
|
312 |
|
|
try {
|
313 |
|
|
seperator = PropertyService.getProperty("document.accNumSeparator");
|
314 |
|
|
} catch (PropertyNotFoundException pnfe) {
|
315 |
|
|
logMetacat.error("Could not fing property 'accNumSeparator'. "
|
316 |
|
|
+ "Setting separator to '.': " + pnfe.getMessage());
|
317 |
|
|
}
|
318 |
|
|
// the new file name will look like docid.rev.2
|
319 |
|
|
inlineDataFileName = docidWithoutRev + seperator + revision + seperator
|
320 |
4472
|
daigle
|
+ distributionIndex;
|
321 |
5752
|
leinfelder
|
inlineDataFileWriter = createInlineDataFileWriter(inlineDataFileName, encoding);
|
322 |
4678
|
daigle
|
// put the inline file id into a vector. If upload failed,
|
323 |
|
|
// metacat will delete the inline data file
|
324 |
|
|
inlineFileIdList.add(inlineDataFileName);
|
325 |
|
|
|
326 |
|
|
currentDistributionSection.setDistributionType(DistributionSection.INLINE_DATA_DISTRIBUTION);
|
327 |
|
|
currentDistributionSection.setDataFileName(inlineDataFileName);
|
328 |
2169
|
sgarg
|
|
329 |
4678
|
daigle
|
}
|
330 |
2169
|
sgarg
|
|
331 |
4678
|
daigle
|
// If hit a text node, we need write this text for current's parent
|
332 |
|
|
// node This will happen if the element is mixed
|
333 |
|
|
if (hitTextNode && parentNode != null) {
|
334 |
2169
|
sgarg
|
|
335 |
4678
|
daigle
|
// compare top level access module
|
336 |
5311
|
daigle
|
if (processingTopLevelAccess && needToCheckAccessModule) {
|
337 |
|
|
compareAccessTextNode(currentUnchangeableAccessModuleNodeStack, textBuffer);
|
338 |
4678
|
daigle
|
}
|
339 |
2169
|
sgarg
|
|
340 |
4678
|
daigle
|
if (needToCheckAccessModule
|
341 |
5311
|
daigle
|
&& (processingAdditionalAccess || processingOtherAccess || processingTopLevelAccess)) {
|
342 |
4678
|
daigle
|
// stored the pull out nodes into storedNode stack
|
343 |
|
|
NodeRecord nodeElement = new NodeRecord(-2, -2, -2, "TEXT", null,
|
344 |
4698
|
daigle
|
null, MetacatUtil.normalize(textBuffer.toString()));
|
345 |
4678
|
daigle
|
storedAccessNodeStack.push(nodeElement);
|
346 |
2169
|
sgarg
|
|
347 |
4678
|
daigle
|
}
|
348 |
2169
|
sgarg
|
|
349 |
4678
|
daigle
|
// write the textbuffer into db for parent node.
|
350 |
|
|
endNodeId = writeTextForDBSAXNode(endNodeId, textBuffer, parentNode);
|
351 |
|
|
// rest hitTextNode
|
352 |
|
|
hitTextNode = false;
|
353 |
|
|
// reset textbuffer
|
354 |
|
|
textBuffer = null;
|
355 |
|
|
textBuffer = new StringBuffer();
|
356 |
2169
|
sgarg
|
|
357 |
4678
|
daigle
|
}
|
358 |
2169
|
sgarg
|
|
359 |
4678
|
daigle
|
// Document representation that points to the root document node
|
360 |
|
|
if (atFirstElement) {
|
361 |
|
|
atFirstElement = false;
|
362 |
|
|
// If no DOCTYPE declaration: docname = root element
|
363 |
|
|
// doctype = root element name or name space
|
364 |
|
|
if (docname == null) {
|
365 |
|
|
docname = localName;
|
366 |
|
|
// if uri isn't null doctype = uri(namespace)
|
367 |
|
|
// othewise root element
|
368 |
|
|
if (uri != null && !(uri.trim()).equals("")) {
|
369 |
|
|
doctype = uri;
|
370 |
|
|
} else {
|
371 |
|
|
doctype = docname;
|
372 |
|
|
}
|
373 |
|
|
logMetacat.debug("DOCNAME-a: " + docname);
|
374 |
|
|
logMetacat.debug("DOCTYPE-a: " + doctype);
|
375 |
|
|
} else if (doctype == null) {
|
376 |
|
|
// because docname is not null and it is declared in dtd
|
377 |
|
|
// so could not be in schema, no namespace
|
378 |
|
|
doctype = docname;
|
379 |
|
|
logMetacat.debug("DOCTYPE-b: " + doctype);
|
380 |
|
|
}
|
381 |
|
|
rootNode.writeNodename(docname);
|
382 |
|
|
try {
|
383 |
|
|
// for validated XML Documents store a reference to XML DB
|
384 |
|
|
// Catalog. Because this is select statement and it needn't
|
385 |
|
|
// roll back if insert document action failed. In order to
|
386 |
|
|
// decrease DBConnection usage count, we get a new
|
387 |
|
|
// dbconnection from pool String catalogid = null;
|
388 |
|
|
DBConnection dbConn = null;
|
389 |
|
|
int serialNumber = -1;
|
390 |
2169
|
sgarg
|
|
391 |
4678
|
daigle
|
try {
|
392 |
|
|
// Get dbconnection
|
393 |
|
|
dbConn = DBConnectionPool
|
394 |
|
|
.getDBConnection("DBSAXHandler.startElement");
|
395 |
|
|
serialNumber = dbConn.getCheckOutSerialNumber();
|
396 |
6606
|
leinfelder
|
|
397 |
|
|
String sql = "SELECT catalog_id FROM xml_catalog "
|
398 |
|
|
+ "WHERE entry_type = 'Schema' "
|
399 |
|
|
+ "AND public_id = ?";
|
400 |
|
|
PreparedStatement pstmt = dbConn.prepareStatement(sql);
|
401 |
|
|
pstmt.setString(1, doctype);
|
402 |
|
|
ResultSet rs = pstmt.executeQuery();
|
403 |
4678
|
daigle
|
boolean hasRow = rs.next();
|
404 |
|
|
if (hasRow) {
|
405 |
|
|
catalogid = rs.getString(1);
|
406 |
|
|
}
|
407 |
6606
|
leinfelder
|
pstmt.close();
|
408 |
4678
|
daigle
|
}// try
|
409 |
|
|
finally {
|
410 |
|
|
// Return dbconnection
|
411 |
|
|
DBConnectionPool.returnDBConnection(dbConn, serialNumber);
|
412 |
|
|
}// finally
|
413 |
2169
|
sgarg
|
|
414 |
4678
|
daigle
|
// create documentImpl object by the constructor which can
|
415 |
|
|
// specify the revision
|
416 |
|
|
if (!super.getIsRevisionDoc()) {
|
417 |
|
|
currentDocument = new DocumentImpl(connection, rootNode
|
418 |
|
|
.getNodeID(), docname, doctype, docid, revision, action,
|
419 |
|
|
user, this.pub, catalogid, this.serverCode, createDate,
|
420 |
|
|
updateDate);
|
421 |
|
|
}
|
422 |
2169
|
sgarg
|
|
423 |
5200
|
daigle
|
} catch (McdbDocNotFoundException mdnfe) {
|
424 |
|
|
Vector<Integer> revList = null;
|
425 |
|
|
|
426 |
|
|
try {
|
427 |
|
|
revList = DBUtil.getRevListFromRevisionTable(docid);
|
428 |
|
|
} catch (SQLException sqle) {
|
429 |
|
|
logMetacat.error("SQL error when trying to get rev list for doc " + docid + " : " + sqle.getMessage());
|
430 |
|
|
throw (new SAXException("Doc ID " + docid + " was not found and cannot be updated."));
|
431 |
|
|
}
|
432 |
|
|
|
433 |
|
|
if (revList.size() > 0) {
|
434 |
5208
|
daigle
|
throw (new SAXException("EML210SaxHandler.startElement - Doc ID " + docid + " was deleted and cannot be updated."));
|
435 |
5200
|
daigle
|
} else {
|
436 |
5208
|
daigle
|
throw (new SAXException("EML210SaxHandler.startElement - Doc ID " + docid + " was not found and cannot be updated."));
|
437 |
5200
|
daigle
|
}
|
438 |
|
|
} catch (Exception e) {
|
439 |
5208
|
daigle
|
throw (new SAXException("EML210SaxHandler.startElement - error with action " +
|
440 |
|
|
action + " : " + e.getMessage()));
|
441 |
4678
|
daigle
|
}
|
442 |
|
|
}
|
443 |
2169
|
sgarg
|
|
444 |
4678
|
daigle
|
// Create the current node representation
|
445 |
|
|
currentNode = new DBSAXNode(connection, qName, localName, parentNode,
|
446 |
|
|
rootNode.getNodeID(), docid, doctype);
|
447 |
|
|
// Use a local variable to store the element node id
|
448 |
|
|
// If this element is a start point of subtree(section), it will be
|
449 |
|
|
// stored otherwise, it will be discarded
|
450 |
|
|
long startNodeId = currentNode.getNodeID();
|
451 |
|
|
// Add all of the namespaces
|
452 |
|
|
String prefix = null;
|
453 |
|
|
String nsuri = null;
|
454 |
|
|
Enumeration<String> prefixes = namespaces.keys();
|
455 |
|
|
while (prefixes.hasMoreElements()) {
|
456 |
|
|
prefix = prefixes.nextElement();
|
457 |
|
|
nsuri = namespaces.get(prefix);
|
458 |
|
|
endNodeId = currentNode.setNamespace(prefix, nsuri, docid);
|
459 |
|
|
}
|
460 |
2169
|
sgarg
|
|
461 |
4678
|
daigle
|
// Add all of the attributes
|
462 |
|
|
for (int i = 0; i < atts.getLength(); i++) {
|
463 |
|
|
String attributeName = atts.getQName(i);
|
464 |
|
|
String attributeValue = atts.getValue(i);
|
465 |
|
|
endNodeId = currentNode
|
466 |
|
|
.setAttribute(attributeName, attributeValue, docid);
|
467 |
2169
|
sgarg
|
|
468 |
4678
|
daigle
|
// To handle name space and schema location if the attribute
|
469 |
|
|
// name is xsi:schemaLocation. If the name space is in not
|
470 |
|
|
// in catalog table it will be registered.
|
471 |
|
|
if (attributeName != null
|
472 |
|
|
&& attributeName.indexOf(MetaCatServlet.SCHEMALOCATIONKEYWORD) != -1) {
|
473 |
|
|
SchemaLocationResolver resolver = new SchemaLocationResolver(
|
474 |
|
|
attributeValue);
|
475 |
|
|
resolver.resolveNameSpace();
|
476 |
2169
|
sgarg
|
|
477 |
4678
|
daigle
|
} else if (attributeName != null && attributeName.equals(ID)) {
|
478 |
5096
|
daigle
|
|
479 |
4678
|
daigle
|
}
|
480 |
|
|
}// for
|
481 |
|
|
|
482 |
|
|
// handle access stuff
|
483 |
|
|
if (localName.equals(ACCESS)) {
|
484 |
|
|
if (parentNode.getTagName().equals(EML)) {
|
485 |
5311
|
daigle
|
processingTopLevelAccess = true;
|
486 |
4472
|
daigle
|
} else if (parentNode.getTagName() == DISTRIBUTION) {
|
487 |
5311
|
daigle
|
processingAdditionalAccess = true;
|
488 |
4472
|
daigle
|
} else {
|
489 |
|
|
// process other access embedded into resource level
|
490 |
|
|
// module
|
491 |
5311
|
daigle
|
processingOtherAccess = true;
|
492 |
4472
|
daigle
|
}
|
493 |
4678
|
daigle
|
// create access object
|
494 |
|
|
accessObject = new AccessSection();
|
495 |
|
|
// set permission order
|
496 |
|
|
String permOrder = currentNode.getAttribute(ORDER);
|
497 |
|
|
accessObject.setPermissionOrder(permOrder);
|
498 |
|
|
// set access id
|
499 |
|
|
String accessId = currentNode.getAttribute(ID);
|
500 |
|
|
accessObject.setSubTreeId(accessId);
|
501 |
|
|
accessObject.setStartNodeId(startNodeId);
|
502 |
|
|
accessObject.setDocId(docid);
|
503 |
5311
|
daigle
|
if (processingAdditionalAccess) {
|
504 |
4678
|
daigle
|
accessObject.setDataFileName(inlineDataFileName);
|
505 |
|
|
}
|
506 |
2169
|
sgarg
|
|
507 |
4678
|
daigle
|
// load top level node stack to
|
508 |
|
|
// currentUnchangableAccessModuleNodeStack
|
509 |
5311
|
daigle
|
if (processingTopLevelAccess && needToCheckAccessModule) {
|
510 |
4678
|
daigle
|
// get the node stack for
|
511 |
|
|
currentUnchangeableAccessModuleNodeStack = topAccessSection
|
512 |
|
|
.getSubTreeNodeStack();
|
513 |
|
|
}
|
514 |
|
|
} else if (localName.equals(DISTRIBUTION)) {
|
515 |
|
|
distributionIndex++;
|
516 |
|
|
currentDistributionSection = new DistributionSection(distributionIndex);
|
517 |
2169
|
sgarg
|
|
518 |
4678
|
daigle
|
// handle subtree info
|
519 |
|
|
SubTree subTree = new SubTree();
|
520 |
|
|
// set sub tree id
|
521 |
|
|
subTree.setSubTreeId(String.valueOf(distributionIndex));
|
522 |
|
|
// set sub tree start element name
|
523 |
|
|
subTree.setStartElementName(currentNode.getTagName());
|
524 |
|
|
// set start node number
|
525 |
|
|
subTree.setStartNodeId(startNodeId);
|
526 |
|
|
// add to stack, but it didn't get end node id yet
|
527 |
|
|
subTreeInfoStack.push(subTree);
|
528 |
|
|
}
|
529 |
|
|
// Set up a access rule for allow
|
530 |
|
|
else if (parentNode.getTagName() != null
|
531 |
|
|
&& (parentNode.getTagName()).equals(ACCESS)
|
532 |
|
|
&& localName.equals(ALLOW)) {
|
533 |
2169
|
sgarg
|
|
534 |
4678
|
daigle
|
accessRule = new AccessRule();
|
535 |
2169
|
sgarg
|
|
536 |
4678
|
daigle
|
// set permission type "allow"
|
537 |
|
|
accessRule.setPermissionType(ALLOW);
|
538 |
2169
|
sgarg
|
|
539 |
4678
|
daigle
|
}
|
540 |
|
|
// set up an access rule for deny
|
541 |
|
|
else if (parentNode.getTagName() != null
|
542 |
|
|
&& (parentNode.getTagName()).equals(ACCESS) && localName.equals(DENY)) {
|
543 |
|
|
accessRule = new AccessRule();
|
544 |
|
|
// set permission type "allow"
|
545 |
|
|
accessRule.setPermissionType(DENY);
|
546 |
|
|
}
|
547 |
2169
|
sgarg
|
|
548 |
4678
|
daigle
|
// Add the node to the stack, so that any text data can be
|
549 |
|
|
// added as it is encountered
|
550 |
|
|
nodeStack.push(currentNode);
|
551 |
|
|
// Add the node to the vector used by thread for writing XML Index
|
552 |
|
|
nodeIndex.addElement(currentNode);
|
553 |
2169
|
sgarg
|
|
554 |
4678
|
daigle
|
// compare top access level module
|
555 |
5311
|
daigle
|
if (processingTopLevelAccess && needToCheckAccessModule) {
|
556 |
4678
|
daigle
|
compareElementNameSpaceAttributes(
|
557 |
|
|
currentUnchangeableAccessModuleNodeStack, namespaces, atts,
|
558 |
|
|
localName, UPDATEACCESSERROR);
|
559 |
2169
|
sgarg
|
|
560 |
4678
|
daigle
|
}
|
561 |
2169
|
sgarg
|
|
562 |
4678
|
daigle
|
// store access module element and attributes into stored stack
|
563 |
|
|
if (needToCheckAccessModule
|
564 |
5311
|
daigle
|
&& (processingAdditionalAccess || processingOtherAccess || processingTopLevelAccess)) {
|
565 |
4678
|
daigle
|
// stored the pull out nodes into storedNode stack
|
566 |
|
|
NodeRecord nodeElement = new NodeRecord(-2, -2, -2, "ELEMENT", localName,
|
567 |
4698
|
daigle
|
prefix, MetacatUtil.normalize(null));
|
568 |
4678
|
daigle
|
storedAccessNodeStack.push(nodeElement);
|
569 |
|
|
for (int i = 0; i < atts.getLength(); i++) {
|
570 |
|
|
String attributeName = atts.getQName(i);
|
571 |
|
|
String attributeValue = atts.getValue(i);
|
572 |
|
|
NodeRecord nodeAttribute = new NodeRecord(-2, -2, -2, "ATTRIBUTE",
|
573 |
4698
|
daigle
|
attributeName, null, MetacatUtil.normalize(attributeValue));
|
574 |
4678
|
daigle
|
storedAccessNodeStack.push(nodeAttribute);
|
575 |
|
|
}
|
576 |
2169
|
sgarg
|
|
577 |
4678
|
daigle
|
}
|
578 |
2169
|
sgarg
|
|
579 |
4678
|
daigle
|
// reset name space
|
580 |
|
|
namespaces = null;
|
581 |
|
|
namespaces = new Hashtable<String, String>();
|
582 |
|
|
}// not inline data
|
583 |
|
|
else {
|
584 |
|
|
// we don't buffer the inline data in characters() method
|
585 |
|
|
// so start character don't need to hand text node.
|
586 |
2169
|
sgarg
|
|
587 |
4678
|
daigle
|
// inline data may be the xml format.
|
588 |
|
|
StringBuffer inlineElements = new StringBuffer();
|
589 |
|
|
inlineElements.append("<").append(qName);
|
590 |
|
|
// append attributes
|
591 |
|
|
for (int i = 0; i < atts.getLength(); i++) {
|
592 |
|
|
String attributeName = atts.getQName(i);
|
593 |
|
|
String attributeValue = atts.getValue(i);
|
594 |
|
|
inlineElements.append(" ");
|
595 |
|
|
inlineElements.append(attributeName);
|
596 |
|
|
inlineElements.append("=\"");
|
597 |
|
|
inlineElements.append(attributeValue);
|
598 |
|
|
inlineElements.append("\"");
|
599 |
|
|
}
|
600 |
|
|
// append namespace
|
601 |
|
|
String prefix = null;
|
602 |
|
|
String nsuri = null;
|
603 |
|
|
Enumeration<String> prefixes = inlineDataNameSpace.keys();
|
604 |
|
|
while (prefixes.hasMoreElements()) {
|
605 |
|
|
prefix = prefixes.nextElement();
|
606 |
|
|
nsuri = namespaces.get(prefix);
|
607 |
|
|
inlineElements.append(" ");
|
608 |
|
|
inlineElements.append("xmlns:");
|
609 |
|
|
inlineElements.append(prefix);
|
610 |
|
|
inlineElements.append("=\"");
|
611 |
|
|
inlineElements.append(nsuri);
|
612 |
|
|
inlineElements.append("\"");
|
613 |
|
|
}
|
614 |
|
|
inlineElements.append(">");
|
615 |
|
|
// reset inline data name space
|
616 |
|
|
inlineDataNameSpace = null;
|
617 |
|
|
inlineDataNameSpace = new Hashtable<String, String>();
|
618 |
|
|
// write inline data into file
|
619 |
|
|
logMetacat.debug("the inline element data is: " + inlineElements.toString());
|
620 |
|
|
writeInlineDataIntoFile(inlineDataFileWriter, inlineElements);
|
621 |
|
|
}// else
|
622 |
2169
|
sgarg
|
|
623 |
4678
|
daigle
|
}
|
624 |
2169
|
sgarg
|
|
625 |
4678
|
daigle
|
private void compareElementNameSpaceAttributes(
|
626 |
|
|
Stack<NodeRecord> unchangeableNodeStack,
|
627 |
|
|
Hashtable<String, String> nameSpaces, Attributes attributes,
|
628 |
|
|
String localName, String error) throws SAXException {
|
629 |
|
|
// Get element subtree node stack (element node)
|
630 |
|
|
NodeRecord elementNode = null;
|
631 |
|
|
try {
|
632 |
|
|
elementNode = unchangeableNodeStack.pop();
|
633 |
|
|
} catch (EmptyStackException ee) {
|
634 |
|
|
logMetacat.error("Node stack is empty for element data");
|
635 |
|
|
throw new SAXException(error);
|
636 |
|
|
}
|
637 |
|
|
logMetacat.debug("current node type from xml is ELEMENT");
|
638 |
|
|
logMetacat.debug("node type from stack: " + elementNode.getNodeType());
|
639 |
|
|
logMetacat.debug("node name from xml document: " + localName);
|
640 |
|
|
logMetacat.debug("node name from stack: " + elementNode.getNodeName());
|
641 |
|
|
logMetacat.debug("node data from stack: " + elementNode.getNodeData());
|
642 |
|
|
logMetacat.debug("node id is: " + elementNode.getNodeId());
|
643 |
|
|
// if this node is not element or local name not equal or name space
|
644 |
|
|
// not equals, throw an exception
|
645 |
|
|
if (!elementNode.getNodeType().equals("ELEMENT")
|
646 |
|
|
|| !localName.equals(elementNode.getNodeName()))
|
647 |
|
|
// (uri != null && !uri.equals(elementNode.getNodePrefix())))
|
648 |
|
|
{
|
649 |
|
|
logMetacat.error("Inconsistence happened: ");
|
650 |
|
|
logMetacat.error("current node type from xml is ELEMENT");
|
651 |
|
|
logMetacat.error("node type from stack: " + elementNode.getNodeType());
|
652 |
|
|
logMetacat.error("node name from xml document: " + localName);
|
653 |
|
|
logMetacat.error("node name from stack: " + elementNode.getNodeName());
|
654 |
|
|
logMetacat.error("node data from stack: " + elementNode.getNodeData());
|
655 |
|
|
logMetacat.error("node id is: " + elementNode.getNodeId());
|
656 |
|
|
throw new SAXException(error);
|
657 |
|
|
}
|
658 |
2169
|
sgarg
|
|
659 |
4678
|
daigle
|
// compare namespace
|
660 |
|
|
Enumeration<String> nameEn = nameSpaces.keys();
|
661 |
|
|
while (nameEn.hasMoreElements()) {
|
662 |
|
|
// Get namespacke node stack (element node)
|
663 |
|
|
NodeRecord nameNode = null;
|
664 |
|
|
try {
|
665 |
|
|
nameNode = unchangeableNodeStack.pop();
|
666 |
|
|
} catch (EmptyStackException ee) {
|
667 |
|
|
logMetacat.error("Node stack is empty for namespace data");
|
668 |
|
|
throw new SAXException(error);
|
669 |
|
|
}
|
670 |
2169
|
sgarg
|
|
671 |
4678
|
daigle
|
String prefixName = nameEn.nextElement();
|
672 |
|
|
String nameSpaceUri = nameSpaces.get(prefixName);
|
673 |
|
|
if (!nameNode.getNodeType().equals("NAMESPACE")
|
674 |
|
|
|| !prefixName.equals(nameNode.getNodeName())
|
675 |
|
|
|| !nameSpaceUri.equals(nameNode.getNodeData())) {
|
676 |
|
|
logMetacat.error("Inconsistence happened: ");
|
677 |
|
|
logMetacat.error("current node type from xml is NAMESPACE");
|
678 |
|
|
logMetacat.error("node type from stack: " + nameNode.getNodeType());
|
679 |
|
|
logMetacat.error("current node name from xml is: " + prefixName);
|
680 |
|
|
logMetacat.error("node name from stack: " + nameNode.getNodeName());
|
681 |
|
|
logMetacat.error("current node data from xml is: " + nameSpaceUri);
|
682 |
|
|
logMetacat.error("node data from stack: " + nameNode.getNodeData());
|
683 |
|
|
logMetacat.error("node id is: " + nameNode.getNodeId());
|
684 |
|
|
throw new SAXException(error);
|
685 |
|
|
}
|
686 |
2169
|
sgarg
|
|
687 |
4678
|
daigle
|
}// while
|
688 |
2169
|
sgarg
|
|
689 |
4678
|
daigle
|
// compare attributes
|
690 |
|
|
for (int i = 0; i < attributes.getLength(); i++) {
|
691 |
|
|
NodeRecord attriNode = null;
|
692 |
|
|
try {
|
693 |
|
|
attriNode = unchangeableNodeStack.pop();
|
694 |
2169
|
sgarg
|
|
695 |
4678
|
daigle
|
} catch (EmptyStackException ee) {
|
696 |
|
|
logMetacat.error("Node stack is empty for attribute data");
|
697 |
|
|
throw new SAXException(error);
|
698 |
|
|
}
|
699 |
|
|
String attributeName = attributes.getQName(i);
|
700 |
|
|
String attributeValue = attributes.getValue(i);
|
701 |
|
|
logMetacat.debug("current node type from xml is ATTRIBUTE ");
|
702 |
|
|
logMetacat.debug("node type from stack: " + attriNode.getNodeType());
|
703 |
|
|
logMetacat.debug("current node name from xml is: " + attributeName);
|
704 |
|
|
logMetacat.debug("node name from stack: " + attriNode.getNodeName());
|
705 |
|
|
logMetacat.debug("current node data from xml is: " + attributeValue);
|
706 |
|
|
logMetacat.debug("node data from stack: " + attriNode.getNodeData());
|
707 |
|
|
logMetacat.debug("node id is: " + attriNode.getNodeId());
|
708 |
2169
|
sgarg
|
|
709 |
4678
|
daigle
|
if (!attriNode.getNodeType().equals("ATTRIBUTE")
|
710 |
|
|
|| !attributeName.equals(attriNode.getNodeName())
|
711 |
|
|
|| !attributeValue.equals(attriNode.getNodeData())) {
|
712 |
|
|
logMetacat.error("Inconsistence happened: ");
|
713 |
|
|
logMetacat.error("current node type from xml is ATTRIBUTE ");
|
714 |
|
|
logMetacat.error("node type from stack: " + attriNode.getNodeType());
|
715 |
|
|
logMetacat.error("current node name from xml is: " + attributeName);
|
716 |
|
|
logMetacat.error("node name from stack: " + attriNode.getNodeName());
|
717 |
|
|
logMetacat.error("current node data from xml is: " + attributeValue);
|
718 |
|
|
logMetacat.error("node data from stack: " + attriNode.getNodeData());
|
719 |
|
|
logMetacat.error("node is: " + attriNode.getNodeId());
|
720 |
|
|
throw new SAXException(error);
|
721 |
|
|
}
|
722 |
|
|
}// for
|
723 |
2169
|
sgarg
|
|
724 |
4678
|
daigle
|
}
|
725 |
2169
|
sgarg
|
|
726 |
4678
|
daigle
|
/* method to compare current text node and node in db */
|
727 |
5311
|
daigle
|
private void compareAccessTextNode(Stack<NodeRecord> nodeStack, StringBuffer text) throws SAXException {
|
728 |
4678
|
daigle
|
NodeRecord node = null;
|
729 |
|
|
// get node from current stack
|
730 |
|
|
try {
|
731 |
|
|
node = nodeStack.pop();
|
732 |
|
|
} catch (EmptyStackException ee) {
|
733 |
5311
|
daigle
|
logMetacat.error("Node stack is empty for text data in startElement for doc id " + docid);
|
734 |
|
|
throw new SAXException("Access rules could not be found in database.");
|
735 |
4678
|
daigle
|
}
|
736 |
5311
|
daigle
|
|
737 |
|
|
String dbAccessData = node.getNodeData();
|
738 |
|
|
String docAccessData = text.toString().trim();
|
739 |
|
|
|
740 |
|
|
logMetacat.debug("Eml210SAXHandler.compareAccessTextNode - \n" +
|
741 |
|
|
"\t access node type from db: " + node.getNodeType() + "\n" +
|
742 |
|
|
"\t access node data from db: " + node.getNodeData() + "\n" +
|
743 |
|
|
"\t access node data from document: " + text.toString());
|
744 |
|
|
|
745 |
4678
|
daigle
|
if (!node.getNodeType().equals("TEXT")
|
746 |
5311
|
daigle
|
|| !docAccessData.equals(dbAccessData)) {
|
747 |
|
|
logMetacat.warn("Eml210SAXHandler.compareAccessTextNode - Access record mismatch: \n" +
|
748 |
|
|
"\t access node type from db: " + node.getNodeType() + "\n" +
|
749 |
|
|
"\t access node data from db: " + dbAccessData + "\n" +
|
750 |
|
|
"\t access node data from document: " + docAccessData);
|
751 |
|
|
|
752 |
|
|
throw new SAXException(UPDATEACCESSERROR + " [Eml210SAXHandler.compareAccessTextNode]");
|
753 |
4678
|
daigle
|
}// if
|
754 |
|
|
}
|
755 |
2169
|
sgarg
|
|
756 |
4678
|
daigle
|
/** SAX Handler that is called for each XML text node */
|
757 |
|
|
public void characters(char[] cbuf, int start, int len) throws SAXException {
|
758 |
|
|
logMetacat.debug("CHARACTERS");
|
759 |
|
|
if (!handleInlineData) {
|
760 |
|
|
// buffer all text nodes for same element. This is for if text was
|
761 |
|
|
// split into different nodes
|
762 |
|
|
textBuffer.append(new String(cbuf, start, len));
|
763 |
|
|
// set hittextnode true
|
764 |
|
|
hitTextNode = true;
|
765 |
|
|
// if text buffer .size is greater than max, write it to db.
|
766 |
|
|
// so we can save memory
|
767 |
|
|
if (textBuffer.length() > MAXDATACHARS) {
|
768 |
|
|
logMetacat.debug("Write text into DB in charaters"
|
769 |
|
|
+ " when text buffer size is greater than maxmum number");
|
770 |
|
|
DBSAXNode currentNode = (DBSAXNode) nodeStack.peek();
|
771 |
|
|
endNodeId = writeTextForDBSAXNode(endNodeId, textBuffer, currentNode);
|
772 |
|
|
textBuffer = null;
|
773 |
|
|
textBuffer = new StringBuffer();
|
774 |
|
|
}
|
775 |
|
|
} else {
|
776 |
|
|
// this is inline data and write file system directly
|
777 |
|
|
// we don't need to buffer it.
|
778 |
|
|
StringBuffer inlineText = new StringBuffer();
|
779 |
|
|
inlineText.append(new String(cbuf, start, len));
|
780 |
|
|
logMetacat.debug("The inline text data write into file system: "
|
781 |
|
|
+ inlineText.toString());
|
782 |
|
|
writeInlineDataIntoFile(inlineDataFileWriter, inlineText);
|
783 |
|
|
}
|
784 |
|
|
}
|
785 |
2169
|
sgarg
|
|
786 |
4678
|
daigle
|
/** SAX Handler that is called at the end of each XML element */
|
787 |
|
|
public void endElement(String uri, String localName, String qName)
|
788 |
|
|
throws SAXException {
|
789 |
|
|
logMetacat.debug("End ELEMENT " + qName);
|
790 |
2169
|
sgarg
|
|
791 |
4678
|
daigle
|
if (localName.equals(INLINE) && handleInlineData) {
|
792 |
|
|
// Get the node from the stack
|
793 |
|
|
DBSAXNode currentNode = (DBSAXNode) nodeStack.pop();
|
794 |
|
|
logMetacat.debug("End of inline data");
|
795 |
|
|
// close file writer
|
796 |
|
|
try {
|
797 |
|
|
inlineDataFileWriter.close();
|
798 |
|
|
handleInlineData = false;
|
799 |
|
|
} catch (IOException ioe) {
|
800 |
|
|
throw new SAXException(ioe.getMessage());
|
801 |
|
|
}
|
802 |
2169
|
sgarg
|
|
803 |
4678
|
daigle
|
// write put inline data file name into text buffer (without path)
|
804 |
|
|
textBuffer = new StringBuffer(inlineDataFileName);
|
805 |
|
|
// write file name into db
|
806 |
|
|
endNodeId = writeTextForDBSAXNode(endNodeId, textBuffer, currentNode);
|
807 |
|
|
// reset textbuff
|
808 |
|
|
textBuffer = null;
|
809 |
|
|
textBuffer = new StringBuffer();
|
810 |
|
|
return;
|
811 |
|
|
}
|
812 |
2169
|
sgarg
|
|
813 |
4678
|
daigle
|
if (!handleInlineData) {
|
814 |
|
|
// Get the node from the stack
|
815 |
|
|
DBSAXNode currentNode = (DBSAXNode) nodeStack.pop();
|
816 |
|
|
String currentTag = currentNode.getTagName();
|
817 |
2169
|
sgarg
|
|
818 |
4678
|
daigle
|
// If before the end element, the parser hit text nodes and store
|
819 |
|
|
// them into the buffer, write the buffer to data base. The reason
|
820 |
|
|
// we put write database here is for xerces some time split text
|
821 |
|
|
// node
|
822 |
|
|
if (hitTextNode) {
|
823 |
|
|
// get access value
|
824 |
|
|
String data = null;
|
825 |
|
|
// add principal
|
826 |
|
|
if (currentTag.equals(PRINCIPAL) && accessRule != null) {
|
827 |
|
|
data = (textBuffer.toString()).trim();
|
828 |
|
|
accessRule.addPrincipal(data);
|
829 |
2169
|
sgarg
|
|
830 |
4678
|
daigle
|
} else if (currentTag.equals(PERMISSION) && accessRule != null) {
|
831 |
|
|
data = (textBuffer.toString()).trim();
|
832 |
|
|
// we combine different a permission into one value
|
833 |
|
|
int permission = accessRule.getPermission();
|
834 |
|
|
// add permission
|
835 |
|
|
if (data.toUpperCase().equals(READSTRING)) {
|
836 |
|
|
permission = permission | READ;
|
837 |
|
|
} else if (data.toUpperCase().equals(WRITESTRING)) {
|
838 |
|
|
permission = permission | WRITE;
|
839 |
|
|
} else if (data.toUpperCase().equals(CHMODSTRING)) {
|
840 |
|
|
permission = permission | CHMOD;
|
841 |
|
|
} else if (data.toUpperCase().equals(ALLSTRING)) {
|
842 |
|
|
permission = permission | ALL;
|
843 |
|
|
}
|
844 |
|
|
accessRule.setPermission(permission);
|
845 |
|
|
} else if (currentTag.equals(REFERENCES)
|
846 |
5311
|
daigle
|
&& (processingTopLevelAccess || processingAdditionalAccess || processingOtherAccess)) {
|
847 |
4678
|
daigle
|
// get reference
|
848 |
|
|
data = (textBuffer.toString()).trim();
|
849 |
|
|
// put reference id into accessSection
|
850 |
|
|
accessObject.setReferences(data);
|
851 |
2169
|
sgarg
|
|
852 |
4678
|
daigle
|
} else if (currentTag.equals(URL)) {
|
853 |
|
|
// handle online data, make sure its'parent is online
|
854 |
|
|
DBSAXNode parentNode = (DBSAXNode) nodeStack.peek();
|
855 |
|
|
if (parentNode != null && parentNode.getTagName() != null
|
856 |
|
|
&& parentNode.getTagName().equals(ONLINE)) {
|
857 |
|
|
// if online data is in local metacat, add it to the
|
858 |
|
|
// vector
|
859 |
|
|
data = (textBuffer.toString()).trim();
|
860 |
|
|
handleOnlineUrlDataFile(data);
|
861 |
5311
|
daigle
|
|
862 |
4678
|
daigle
|
}// if
|
863 |
|
|
}// else if
|
864 |
5311
|
daigle
|
|
865 |
4678
|
daigle
|
// write text to db if it is not inline data
|
866 |
5311
|
daigle
|
logMetacat.debug("Write text into DB in End Element");
|
867 |
2169
|
sgarg
|
|
868 |
5311
|
daigle
|
// compare top level access module
|
869 |
|
|
if (processingTopLevelAccess && needToCheckAccessModule) {
|
870 |
|
|
compareAccessTextNode(currentUnchangeableAccessModuleNodeStack,
|
871 |
|
|
textBuffer);
|
872 |
4678
|
daigle
|
}
|
873 |
5311
|
daigle
|
// write text node into db
|
874 |
|
|
endNodeId = writeTextForDBSAXNode(endNodeId, textBuffer, currentNode);
|
875 |
|
|
}
|
876 |
|
|
|
877 |
|
|
if (needToCheckAccessModule
|
878 |
|
|
&& (processingAdditionalAccess || processingOtherAccess || processingTopLevelAccess)) {
|
879 |
|
|
// stored the pull out nodes into storedNode stack
|
880 |
|
|
NodeRecord nodeElement = new NodeRecord(-2, -2, -2, "TEXT", null,
|
881 |
|
|
null, MetacatUtil.normalize(textBuffer.toString()));
|
882 |
|
|
storedAccessNodeStack.push(nodeElement);
|
883 |
2169
|
sgarg
|
|
884 |
5311
|
daigle
|
}
|
885 |
2169
|
sgarg
|
|
886 |
4678
|
daigle
|
// set hitText false
|
887 |
|
|
hitTextNode = false;
|
888 |
|
|
// reset textbuff
|
889 |
|
|
textBuffer = null;
|
890 |
|
|
textBuffer = new StringBuffer();
|
891 |
2169
|
sgarg
|
|
892 |
4678
|
daigle
|
// hand sub stree stuff
|
893 |
|
|
if (!subTreeInfoStack.empty()) {
|
894 |
|
|
SubTree tree = subTreeInfoStack.peek();// get last
|
895 |
|
|
// subtree
|
896 |
|
|
if (tree != null && tree.getStartElementName() != null
|
897 |
|
|
&& (tree.getStartElementName()).equals(currentTag)) {
|
898 |
|
|
// find the end of sub tree and set the end node id
|
899 |
|
|
tree.setEndNodeId(endNodeId);
|
900 |
|
|
// add the subtree into the final store palace
|
901 |
|
|
subTreeList.add(tree);
|
902 |
|
|
// get rid of it from stack
|
903 |
|
|
subTreeInfoStack.pop();
|
904 |
|
|
}// if
|
905 |
|
|
}// if
|
906 |
2169
|
sgarg
|
|
907 |
4678
|
daigle
|
// access stuff
|
908 |
|
|
if (currentTag.equals(ALLOW) || currentTag.equals(DENY)) {
|
909 |
|
|
// finish parser access rule and assign it to new one
|
910 |
|
|
AccessRule newRule = accessRule;
|
911 |
|
|
// add the new rule to access section object
|
912 |
|
|
accessObject.addAccessRule(newRule);
|
913 |
|
|
// reset access rule
|
914 |
|
|
accessRule = null;
|
915 |
|
|
} else if (currentTag.equals(ACCESS)) {
|
916 |
|
|
// finish parsing an access section and assign it to new one
|
917 |
|
|
DBSAXNode parentNode = (DBSAXNode) nodeStack.peek();
|
918 |
2169
|
sgarg
|
|
919 |
4678
|
daigle
|
accessObject.setEndNodeId(endNodeId);
|
920 |
2169
|
sgarg
|
|
921 |
4678
|
daigle
|
if (parentNode != null && parentNode.getTagName() != null
|
922 |
|
|
&& parentNode.getTagName().equals(DISTRIBUTION)) {
|
923 |
|
|
describesId.add(String.valueOf(distributionIndex));
|
924 |
|
|
currentDistributionSection.setAccessSection(accessObject);
|
925 |
|
|
}
|
926 |
2169
|
sgarg
|
|
927 |
4678
|
daigle
|
AccessSection newAccessObject = accessObject;
|
928 |
2169
|
sgarg
|
|
929 |
4678
|
daigle
|
if (newAccessObject != null) {
|
930 |
2169
|
sgarg
|
|
931 |
4678
|
daigle
|
// add the accessSection into a vector to store it
|
932 |
|
|
// if it is not a reference, need to store it
|
933 |
|
|
if (newAccessObject.getReferences() == null) {
|
934 |
2169
|
sgarg
|
|
935 |
4678
|
daigle
|
newAccessObject.setStoredTmpNodeStack(storedAccessNodeStack);
|
936 |
|
|
accessObjectList.add(newAccessObject);
|
937 |
|
|
}
|
938 |
5311
|
daigle
|
if (processingTopLevelAccess) {
|
939 |
2169
|
sgarg
|
|
940 |
4678
|
daigle
|
// top level access control will handle whole document
|
941 |
|
|
// -docid
|
942 |
|
|
topLevelAccessControlMap.put(docid, newAccessObject);
|
943 |
|
|
// reset processtopleveraccess tag
|
944 |
2169
|
sgarg
|
|
945 |
4678
|
daigle
|
}// if
|
946 |
5311
|
daigle
|
else if (processingAdditionalAccess) {
|
947 |
4678
|
daigle
|
// for additional control put everything in describes
|
948 |
|
|
// value
|
949 |
|
|
// and access object into hash
|
950 |
|
|
for (int i = 0; i < describesId.size(); i++) {
|
951 |
2169
|
sgarg
|
|
952 |
4678
|
daigle
|
String subId = describesId.elementAt(i);
|
953 |
|
|
if (subId != null) {
|
954 |
|
|
additionalAccessControlMap.put(subId, newAccessObject);
|
955 |
|
|
}// if
|
956 |
|
|
}// for
|
957 |
|
|
// add this hashtable in to vector
|
958 |
2169
|
sgarg
|
|
959 |
4678
|
daigle
|
additionalAccessMapList.add(additionalAccessControlMap);
|
960 |
|
|
// reset this hashtable in order to store another
|
961 |
|
|
// additional
|
962 |
|
|
// accesscontrol
|
963 |
|
|
additionalAccessControlMap = null;
|
964 |
|
|
additionalAccessControlMap = new Hashtable<String, AccessSection>();
|
965 |
|
|
}// if
|
966 |
2169
|
sgarg
|
|
967 |
4678
|
daigle
|
}// if
|
968 |
|
|
// check if access node stack is empty after parsing top access
|
969 |
|
|
// module
|
970 |
2169
|
sgarg
|
|
971 |
5311
|
daigle
|
if (needToCheckAccessModule && processingTopLevelAccess
|
972 |
4678
|
daigle
|
&& !currentUnchangeableAccessModuleNodeStack.isEmpty()) {
|
973 |
2169
|
sgarg
|
|
974 |
4678
|
daigle
|
logMetacat.error("Access node stack is not empty after "
|
975 |
|
|
+ "parsing access subtree");
|
976 |
|
|
throw new SAXException(UPDATEACCESSERROR);
|
977 |
2169
|
sgarg
|
|
978 |
4678
|
daigle
|
}
|
979 |
|
|
// reset access section object
|
980 |
2169
|
sgarg
|
|
981 |
4678
|
daigle
|
accessObject = null;
|
982 |
2169
|
sgarg
|
|
983 |
4678
|
daigle
|
// reset tmp stored node stack
|
984 |
|
|
storedAccessNodeStack = null;
|
985 |
|
|
storedAccessNodeStack = new Stack<NodeRecord>();
|
986 |
2169
|
sgarg
|
|
987 |
4678
|
daigle
|
// reset flag
|
988 |
5311
|
daigle
|
processingAdditionalAccess = false;
|
989 |
|
|
processingTopLevelAccess = false;
|
990 |
|
|
processingOtherAccess = false;
|
991 |
2169
|
sgarg
|
|
992 |
4678
|
daigle
|
} else if (currentTag.equals(DISTRIBUTION)) {
|
993 |
|
|
// If the current Distribution is inline or data and it doesn't have an access section
|
994 |
|
|
// we use the top level access section (if it exists)
|
995 |
|
|
if ((currentDistributionSection.getDistributionType() == DistributionSection.DATA_DISTRIBUTION
|
996 |
|
|
|| currentDistributionSection.getDistributionType() == DistributionSection.INLINE_DATA_DISTRIBUTION)
|
997 |
|
|
&& currentDistributionSection.getAccessSection() == null
|
998 |
|
|
&& topLevelAccessControlMap.size() > 0) {
|
999 |
|
|
|
1000 |
|
|
AccessSection accessSection = new AccessSection();
|
1001 |
|
|
accessSection.setDocId(docid);
|
1002 |
|
|
AccessSection topLevelAccess = topLevelAccessControlMap.get(docid);
|
1003 |
|
|
accessSection.setPermissionOrder(topLevelAccess.getPermissionOrder());
|
1004 |
|
|
Vector<AccessRule> accessRuleList = topLevelAccess.getAccessRules();
|
1005 |
|
|
for (AccessRule accessRule : accessRuleList) {
|
1006 |
|
|
accessSection.addAccessRule(accessRule);
|
1007 |
|
|
}
|
1008 |
|
|
currentDistributionSection.setAccessSection(accessSection);
|
1009 |
|
|
}
|
1010 |
|
|
if (currentDistributionSection.getAccessSection() != null) {
|
1011 |
|
|
currentDistributionSection.getAccessSection().setDataFileName(currentDistributionSection.getDataFileName());
|
1012 |
|
|
}
|
1013 |
|
|
allDistributionSections.add(currentDistributionSection);
|
1014 |
|
|
currentDistributionSection = null;
|
1015 |
|
|
describesId = null;
|
1016 |
|
|
describesId = new Vector<String>();
|
1017 |
|
|
}
|
1018 |
|
|
} else {
|
1019 |
|
|
// this is in inline part
|
1020 |
|
|
StringBuffer endElement = new StringBuffer();
|
1021 |
|
|
endElement.append("</");
|
1022 |
|
|
endElement.append(qName);
|
1023 |
|
|
endElement.append(">");
|
1024 |
|
|
logMetacat.debug("inline endElement: " + endElement.toString());
|
1025 |
|
|
writeInlineDataIntoFile(inlineDataFileWriter, endElement);
|
1026 |
|
|
}
|
1027 |
|
|
}
|
1028 |
2169
|
sgarg
|
|
1029 |
4678
|
daigle
|
/**
|
1030 |
|
|
* SAX Handler that receives notification of comments in the DTD
|
1031 |
|
|
*/
|
1032 |
|
|
public void comment(char[] ch, int start, int length) throws SAXException {
|
1033 |
|
|
logMetacat.debug("COMMENT");
|
1034 |
|
|
if (!handleInlineData) {
|
1035 |
|
|
if (!processingDTD) {
|
1036 |
|
|
DBSAXNode currentNode = (DBSAXNode) nodeStack.peek();
|
1037 |
|
|
String str = new String(ch, start, length);
|
1038 |
2169
|
sgarg
|
|
1039 |
4678
|
daigle
|
// compare top level access module
|
1040 |
5311
|
daigle
|
if (processingTopLevelAccess && needToCheckAccessModule) {
|
1041 |
4678
|
daigle
|
compareCommentNode(currentUnchangeableAccessModuleNodeStack, str,
|
1042 |
|
|
UPDATEACCESSERROR);
|
1043 |
|
|
}
|
1044 |
|
|
endNodeId = currentNode.writeChildNodeToDB("COMMENT", null, str, docid);
|
1045 |
|
|
if (needToCheckAccessModule
|
1046 |
5311
|
daigle
|
&& (processingAdditionalAccess || processingOtherAccess || processingTopLevelAccess)) {
|
1047 |
4678
|
daigle
|
// stored the pull out nodes into storedNode stack
|
1048 |
|
|
NodeRecord nodeElement = new NodeRecord(-2, -2, -2, "COMMENT", null,
|
1049 |
4698
|
daigle
|
null, MetacatUtil.normalize(str));
|
1050 |
4678
|
daigle
|
storedAccessNodeStack.push(nodeElement);
|
1051 |
2169
|
sgarg
|
|
1052 |
4678
|
daigle
|
}
|
1053 |
|
|
}
|
1054 |
|
|
} else {
|
1055 |
|
|
// inline data comment
|
1056 |
|
|
StringBuffer inlineComment = new StringBuffer();
|
1057 |
|
|
inlineComment.append("<!--");
|
1058 |
|
|
inlineComment.append(new String(ch, start, length));
|
1059 |
|
|
inlineComment.append("-->");
|
1060 |
|
|
logMetacat.debug("inline data comment: " + inlineComment.toString());
|
1061 |
|
|
writeInlineDataIntoFile(inlineDataFileWriter, inlineComment);
|
1062 |
|
|
}
|
1063 |
|
|
}
|
1064 |
2169
|
sgarg
|
|
1065 |
4678
|
daigle
|
/* Compare comment from xml and db */
|
1066 |
|
|
private void compareCommentNode(Stack<NodeRecord> nodeStack, String string,
|
1067 |
|
|
String error) throws SAXException {
|
1068 |
|
|
NodeRecord node = null;
|
1069 |
|
|
try {
|
1070 |
|
|
node = nodeStack.pop();
|
1071 |
|
|
} catch (EmptyStackException ee) {
|
1072 |
|
|
logMetacat.error("the stack is empty for comment data");
|
1073 |
|
|
throw new SAXException(error);
|
1074 |
|
|
}
|
1075 |
|
|
logMetacat.debug("current node type from xml is COMMENT");
|
1076 |
|
|
logMetacat.debug("node type from stack: " + node.getNodeType());
|
1077 |
|
|
logMetacat.debug("current node data from xml is: " + string);
|
1078 |
|
|
logMetacat.debug("node data from stack: " + node.getNodeData());
|
1079 |
|
|
logMetacat.debug("node is from stack: " + node.getNodeId());
|
1080 |
|
|
// if not consistent terminate program and throw a exception
|
1081 |
|
|
if (!node.getNodeType().equals("COMMENT") || !string.equals(node.getNodeData())) {
|
1082 |
|
|
logMetacat.error("Inconsistence happened: ");
|
1083 |
|
|
logMetacat.error("current node type from xml is COMMENT");
|
1084 |
|
|
logMetacat.error("node type from stack: " + node.getNodeType());
|
1085 |
|
|
logMetacat.error("current node data from xml is: " + string);
|
1086 |
|
|
logMetacat.error("node data from stack: " + node.getNodeData());
|
1087 |
|
|
logMetacat.error("node is from stack: " + node.getNodeId());
|
1088 |
|
|
throw new SAXException(error);
|
1089 |
|
|
}// if
|
1090 |
|
|
}
|
1091 |
2169
|
sgarg
|
|
1092 |
4678
|
daigle
|
/**
|
1093 |
|
|
* SAX Handler called once for each processing instruction found: node that
|
1094 |
|
|
* PI may occur before or after the root element.
|
1095 |
|
|
*/
|
1096 |
|
|
public void processingInstruction(String target, String data) throws SAXException {
|
1097 |
|
|
logMetacat.debug("PI");
|
1098 |
|
|
if (!handleInlineData) {
|
1099 |
|
|
DBSAXNode currentNode = (DBSAXNode) nodeStack.peek();
|
1100 |
|
|
endNodeId = currentNode.writeChildNodeToDB("PI", target, data, docid);
|
1101 |
|
|
} else {
|
1102 |
|
|
StringBuffer inlinePI = new StringBuffer();
|
1103 |
|
|
inlinePI.append("<?");
|
1104 |
|
|
inlinePI.append(target);
|
1105 |
|
|
inlinePI.append(" ");
|
1106 |
|
|
inlinePI.append(data);
|
1107 |
|
|
inlinePI.append("?>");
|
1108 |
|
|
logMetacat.debug("inline data pi is: " + inlinePI.toString());
|
1109 |
|
|
writeInlineDataIntoFile(inlineDataFileWriter, inlinePI);
|
1110 |
|
|
}
|
1111 |
|
|
}
|
1112 |
2169
|
sgarg
|
|
1113 |
4678
|
daigle
|
/** SAX Handler that is called at the start of Namespace */
|
1114 |
|
|
public void startPrefixMapping(String prefix, String uri) throws SAXException {
|
1115 |
|
|
logMetacat.debug("NAMESPACE");
|
1116 |
|
|
if (!handleInlineData) {
|
1117 |
|
|
namespaces.put(prefix, uri);
|
1118 |
|
|
} else {
|
1119 |
|
|
inlineDataNameSpace.put(prefix, uri);
|
1120 |
|
|
}
|
1121 |
|
|
}
|
1122 |
2169
|
sgarg
|
|
1123 |
4678
|
daigle
|
/**
|
1124 |
|
|
* SAX Handler that is called for each XML text node that is Ignorable white
|
1125 |
|
|
* space
|
1126 |
|
|
*/
|
1127 |
|
|
public void ignorableWhitespace(char[] cbuf, int start, int len) throws SAXException {
|
1128 |
|
|
// When validation is turned "on", white spaces are reported here
|
1129 |
|
|
// When validation is turned "off" white spaces are not reported here,
|
1130 |
|
|
// but through characters() callback
|
1131 |
|
|
logMetacat.debug("IGNORABLEWHITESPACE");
|
1132 |
|
|
if (!handleInlineData) {
|
1133 |
|
|
DBSAXNode currentNode = (DBSAXNode) nodeStack.peek();
|
1134 |
5208
|
daigle
|
String data = new String(cbuf, start, len);
|
1135 |
4678
|
daigle
|
// compare whitespace in access top module
|
1136 |
5311
|
daigle
|
if (processingTopLevelAccess && needToCheckAccessModule) {
|
1137 |
4678
|
daigle
|
compareWhiteSpace(currentUnchangeableAccessModuleNodeStack, data,
|
1138 |
|
|
UPDATEACCESSERROR);
|
1139 |
|
|
}
|
1140 |
|
|
// Write the content of the node to the database
|
1141 |
|
|
if (needToCheckAccessModule
|
1142 |
5311
|
daigle
|
&& (processingAdditionalAccess || processingOtherAccess || processingTopLevelAccess)) {
|
1143 |
4678
|
daigle
|
// stored the pull out nodes into storedNode stack
|
1144 |
|
|
NodeRecord nodeElement = new NodeRecord(-2, -2, -2, "TEXT", null,
|
1145 |
4698
|
daigle
|
null, MetacatUtil.normalize(data));
|
1146 |
4678
|
daigle
|
storedAccessNodeStack.push(nodeElement);
|
1147 |
2169
|
sgarg
|
|
1148 |
4678
|
daigle
|
}
|
1149 |
|
|
endNodeId = currentNode.writeChildNodeToDB("TEXT", null, data, docid);
|
1150 |
|
|
} else {
|
1151 |
|
|
// This is inline data write to file directly
|
1152 |
|
|
StringBuffer inlineWhiteSpace = new StringBuffer(new String(cbuf, start, len));
|
1153 |
|
|
writeInlineDataIntoFile(inlineDataFileWriter, inlineWhiteSpace);
|
1154 |
|
|
}
|
1155 |
2169
|
sgarg
|
|
1156 |
4678
|
daigle
|
}
|
1157 |
2169
|
sgarg
|
|
1158 |
4678
|
daigle
|
/* Compare whitespace from xml and db */
|
1159 |
|
|
private void compareWhiteSpace(Stack<NodeRecord> nodeStack, String string,
|
1160 |
|
|
String error) throws SAXException {
|
1161 |
|
|
NodeRecord node = null;
|
1162 |
|
|
try {
|
1163 |
|
|
node = nodeStack.pop();
|
1164 |
|
|
} catch (EmptyStackException ee) {
|
1165 |
|
|
logMetacat.error("the stack is empty for whitespace data");
|
1166 |
|
|
throw new SAXException(error);
|
1167 |
|
|
}
|
1168 |
|
|
if (!node.getNodeType().equals("TEXT") || !string.equals(node.getNodeData())) {
|
1169 |
|
|
logMetacat.error("Inconsistence happened: ");
|
1170 |
|
|
logMetacat.error("current node type from xml is WHITESPACE TEXT");
|
1171 |
|
|
logMetacat.error("node type from stack: " + node.getNodeType());
|
1172 |
|
|
logMetacat.error("current node data from xml is: " + string);
|
1173 |
|
|
logMetacat.error("node data from stack: " + node.getNodeData());
|
1174 |
|
|
logMetacat.error("node is from stack: " + node.getNodeId());
|
1175 |
|
|
throw new SAXException(error);
|
1176 |
|
|
}// if
|
1177 |
|
|
}
|
1178 |
2169
|
sgarg
|
|
1179 |
4678
|
daigle
|
/** SAX Handler that receives notification of end of the document */
|
1180 |
|
|
public void endDocument() throws SAXException {
|
1181 |
|
|
logMetacat.debug("end Document");
|
1182 |
|
|
// There are some unchangable subtree didn't be compare
|
1183 |
|
|
// This maybe cause user change the subtree id
|
1184 |
|
|
if (!super.getIsRevisionDoc()) {
|
1185 |
|
|
// write access rule to db
|
1186 |
7128
|
leinfelder
|
if (writeAccessRules) {
|
1187 |
|
|
writeAccessRuleToDB();
|
1188 |
|
|
}
|
1189 |
4678
|
daigle
|
// delete relation table
|
1190 |
|
|
deleteRelations();
|
1191 |
|
|
// write relations
|
1192 |
|
|
for (int i = 0; i < onlineDataFileIdInRelationVector.size(); i++) {
|
1193 |
|
|
String id = onlineDataFileIdInRelationVector.elementAt(i);
|
1194 |
|
|
writeOnlineDataFileIdIntoRelationTable(id);
|
1195 |
|
|
}
|
1196 |
|
|
}
|
1197 |
|
|
}
|
1198 |
2169
|
sgarg
|
|
1199 |
4678
|
daigle
|
/* The method to write all access rule into db */
|
1200 |
|
|
private void writeAccessRuleToDB() throws SAXException {
|
1201 |
|
|
// Delete old permssion
|
1202 |
6744
|
leinfelder
|
deletePermissionsInAccessTable();
|
1203 |
4678
|
daigle
|
// write top leve access rule
|
1204 |
|
|
writeTopLevelAccessRuleToDB();
|
1205 |
|
|
// write additional access rule
|
1206 |
|
|
// writeAdditionalAccessRuleToDB();
|
1207 |
|
|
writeAdditionalAccessRulesToDB();
|
1208 |
|
|
}// writeAccessRuleToDB
|
1209 |
2169
|
sgarg
|
|
1210 |
4678
|
daigle
|
/* The method to write top level access rule into db. */
|
1211 |
|
|
private void writeTopLevelAccessRuleToDB() throws SAXException {
|
1212 |
|
|
// for top document level
|
1213 |
|
|
AccessSection accessSection = topLevelAccessControlMap.get(docid);
|
1214 |
|
|
boolean top = true;
|
1215 |
|
|
String subSectionId = null;
|
1216 |
|
|
if (accessSection != null) {
|
1217 |
|
|
AccessSection accessSectionObj = accessSection;
|
1218 |
2169
|
sgarg
|
|
1219 |
4678
|
daigle
|
// if accessSection is not null and is not reference
|
1220 |
|
|
if (accessSectionObj.getReferences() == null) {
|
1221 |
7137
|
leinfelder
|
// check for denyFirst permOrder
|
1222 |
|
|
String permOrder = accessSectionObj.getPermissionOrder();
|
1223 |
|
|
if (permOrder.equals(AccessControlInterface.DENYFIRST) && ignoreDenyFirst) {
|
1224 |
|
|
logMetacat.warn("Metacat no longer supports EML 'denyFirst' access rules - ignoring this access block");
|
1225 |
|
|
return;
|
1226 |
|
|
}
|
1227 |
4678
|
daigle
|
// write the top level access module into xml_accesssubtree to
|
1228 |
|
|
// store info and then when update to check if the user can
|
1229 |
|
|
// update it or not
|
1230 |
|
|
deleteAccessSubTreeRecord(docid);
|
1231 |
|
|
writeAccessSubTreeIntoDB(accessSectionObj, TOPLEVEL);
|
1232 |
2169
|
sgarg
|
|
1233 |
4678
|
daigle
|
// write access section into xml_access table
|
1234 |
|
|
writeGivenAccessRuleIntoDB(accessSectionObj, top, subSectionId);
|
1235 |
|
|
// write online data file into xml_access too.
|
1236 |
|
|
// for (int i= 0; i <onlineDataFileIdInTopAccessVector.size();
|
1237 |
|
|
// i++)
|
1238 |
|
|
// {
|
1239 |
|
|
// String id = onlineDataFileIdInTopAccessVector.elementAt(i);
|
1240 |
|
|
// writeAccessRuleForRelatedDataFileIntoDB(accessSectionObj,
|
1241 |
|
|
// id);
|
1242 |
|
|
// }
|
1243 |
2169
|
sgarg
|
|
1244 |
4678
|
daigle
|
} else {
|
1245 |
2169
|
sgarg
|
|
1246 |
4678
|
daigle
|
// this is a reference and go trough the vector which contains
|
1247 |
|
|
// all access object
|
1248 |
|
|
String referenceId = accessSectionObj.getReferences();
|
1249 |
|
|
boolean findAccessObject = false;
|
1250 |
|
|
logMetacat.debug("referered id for top access: " + referenceId);
|
1251 |
|
|
for (int i = 0; i < accessObjectList.size(); i++) {
|
1252 |
|
|
AccessSection accessObj = accessObjectList.elementAt(i);
|
1253 |
|
|
String accessObjId = accessObj.getSubTreeId();
|
1254 |
7137
|
leinfelder
|
// check for denyFirst permOrder
|
1255 |
|
|
String permOrder = accessObj.getPermissionOrder();
|
1256 |
|
|
if (permOrder.equals(AccessControlInterface.DENYFIRST) && ignoreDenyFirst) {
|
1257 |
|
|
logMetacat.warn("Metacat no longer supports EML 'denyFirst' access rules - ignoring this access block, subtree id: " + accessObjId);
|
1258 |
|
|
continue;
|
1259 |
|
|
}
|
1260 |
4678
|
daigle
|
if (referenceId != null && accessObj != null
|
1261 |
|
|
&& referenceId.equals(accessObjId)) {
|
1262 |
|
|
// make sure the user didn't change any thing in this
|
1263 |
|
|
// access moduel
|
1264 |
|
|
// too if user doesn't have all permission
|
1265 |
|
|
if (needToCheckAccessModule) {
|
1266 |
2169
|
sgarg
|
|
1267 |
4678
|
daigle
|
Stack<NodeRecord> newStack = accessObj
|
1268 |
|
|
.getStoredTmpNodeStack();
|
1269 |
|
|
// revise order
|
1270 |
5025
|
daigle
|
newStack = DocumentUtil.reviseStack(newStack);
|
1271 |
4678
|
daigle
|
// go throught the vector of
|
1272 |
|
|
// unChangeableAccessSubtreevector
|
1273 |
|
|
// and find the one whose id is as same as
|
1274 |
|
|
// referenceid
|
1275 |
|
|
AccessSection oldAccessObj = getAccessSectionFromUnchangableAccessVector(referenceId);
|
1276 |
|
|
// if oldAccessObj is null something is wrong
|
1277 |
|
|
if (oldAccessObj == null) {
|
1278 |
|
|
throw new SAXException(UPDATEACCESSERROR);
|
1279 |
|
|
}// if
|
1280 |
|
|
else {
|
1281 |
|
|
// Get the node stack from old access obj
|
1282 |
|
|
Stack<NodeRecord> oldStack = oldAccessObj
|
1283 |
|
|
.getSubTreeNodeStack();
|
1284 |
|
|
compareNodeStacks(newStack, oldStack);
|
1285 |
|
|
}// else
|
1286 |
|
|
}// if
|
1287 |
|
|
// write accessobject into db
|
1288 |
|
|
writeGivenAccessRuleIntoDB(accessObj, top, subSectionId);
|
1289 |
|
|
// write online data file into xml_access too.
|
1290 |
|
|
// for (int j= 0; j
|
1291 |
|
|
// <onlineDataFileIdInTopAccessVector.size(); j++)
|
1292 |
|
|
// {
|
1293 |
|
|
// String id =
|
1294 |
|
|
// onlineDataFileIdInTopAccessVector.elementAt(j);
|
1295 |
|
|
// writeAccessRuleForRelatedDataFileIntoDB(accessSectionObj,
|
1296 |
|
|
// id);
|
1297 |
|
|
// }
|
1298 |
2169
|
sgarg
|
|
1299 |
4678
|
daigle
|
// write the reference access into xml_accesssubtree
|
1300 |
|
|
// too write the top level access module into
|
1301 |
|
|
// xml_accesssubtree to store info and then when update
|
1302 |
|
|
// to check if the user can update it or not
|
1303 |
|
|
deleteAccessSubTreeRecord(docid);
|
1304 |
|
|
writeAccessSubTreeIntoDB(accessSectionObj, TOPLEVEL);
|
1305 |
|
|
writeAccessSubTreeIntoDB(accessObj, SUBTREELEVEL);
|
1306 |
|
|
findAccessObject = true;
|
1307 |
|
|
break;
|
1308 |
|
|
}
|
1309 |
|
|
}// for
|
1310 |
|
|
// if we couldn't find an access subtree id for this reference
|
1311 |
|
|
// id
|
1312 |
|
|
if (!findAccessObject) {
|
1313 |
|
|
throw new SAXException("The referenceid: " + referenceId
|
1314 |
|
|
+ " is not access subtree");
|
1315 |
|
|
}// if
|
1316 |
|
|
}// else
|
1317 |
2169
|
sgarg
|
|
1318 |
4678
|
daigle
|
}// if
|
1319 |
|
|
else {
|
1320 |
|
|
// couldn't find a access section object
|
1321 |
|
|
logMetacat.warn("couldn't find access control for document: " + docid);
|
1322 |
|
|
}
|
1323 |
2169
|
sgarg
|
|
1324 |
4678
|
daigle
|
}// writeTopLevelAccessRuletoDB
|
1325 |
2169
|
sgarg
|
|
1326 |
4678
|
daigle
|
/* Given a subtree id and find the responding access section */
|
1327 |
|
|
private AccessSection getAccessSectionFromUnchangableAccessVector(String id) {
|
1328 |
|
|
AccessSection result = null;
|
1329 |
|
|
// Makse sure the id
|
1330 |
|
|
if (id == null || id.equals("")) {
|
1331 |
|
|
return result;
|
1332 |
|
|
}
|
1333 |
|
|
// go throught vector and find the list
|
1334 |
|
|
for (int i = 0; i < unChangeableAccessSubTreeVector.size(); i++) {
|
1335 |
|
|
AccessSection accessObj = unChangeableAccessSubTreeVector.elementAt(i);
|
1336 |
|
|
if (accessObj.getSubTreeId() != null && (accessObj.getSubTreeId()).equals(id)) {
|
1337 |
|
|
result = accessObj;
|
1338 |
|
|
}// if
|
1339 |
|
|
}// for
|
1340 |
|
|
return result;
|
1341 |
|
|
}// getAccessSectionFromUnchangableAccessVector
|
1342 |
2169
|
sgarg
|
|
1343 |
4678
|
daigle
|
/* Compare two node stacks to see if they are same */
|
1344 |
|
|
private void compareNodeStacks(Stack<NodeRecord> stack1, Stack<NodeRecord> stack2)
|
1345 |
|
|
throws SAXException {
|
1346 |
|
|
// make sure stack1 and stack2 are not empty
|
1347 |
|
|
if (stack1.isEmpty() || stack2.isEmpty()) {
|
1348 |
|
|
logMetacat.error("Because stack is empty!");
|
1349 |
|
|
throw new SAXException(UPDATEACCESSERROR);
|
1350 |
|
|
}
|
1351 |
|
|
// go throw two stacks and compare every element
|
1352 |
|
|
while (!stack1.isEmpty()) {
|
1353 |
|
|
// Pop an element from stack1
|
1354 |
|
|
NodeRecord record1 = stack1.pop();
|
1355 |
|
|
// Pop an element from stack2(stack 2 maybe empty)
|
1356 |
|
|
NodeRecord record2 = null;
|
1357 |
|
|
try {
|
1358 |
|
|
record2 = stack2.pop();
|
1359 |
|
|
} catch (EmptyStackException ee) {
|
1360 |
|
|
logMetacat.error("Node stack2 is empty but stack1 isn't!");
|
1361 |
|
|
throw new SAXException(UPDATEACCESSERROR);
|
1362 |
|
|
}
|
1363 |
|
|
// if two records are not same throw a exception
|
1364 |
|
|
if (!record1.contentEquals(record2)) {
|
1365 |
|
|
logMetacat.error("Two records from new and old stack are not " + "same!");
|
1366 |
|
|
throw new SAXException(UPDATEACCESSERROR);
|
1367 |
|
|
}// if
|
1368 |
|
|
}// while
|
1369 |
2169
|
sgarg
|
|
1370 |
4678
|
daigle
|
// now stack1 is empty and we should make sure stack2 is empty too
|
1371 |
|
|
if (!stack2.isEmpty()) {
|
1372 |
|
|
logMetacat
|
1373 |
|
|
.error("stack2 still has some elements while stack " + "is empty! ");
|
1374 |
|
|
throw new SAXException(UPDATEACCESSERROR);
|
1375 |
|
|
}// if
|
1376 |
|
|
}// comparingNodeStacks
|
1377 |
4472
|
daigle
|
|
1378 |
5166
|
daigle
|
/* The method to write additional access rule into db. */
|
1379 |
4678
|
daigle
|
private void writeAdditionalAccessRulesToDB() throws SAXException {
|
1380 |
|
|
|
1381 |
|
|
// Iterate through every distribution and write access sections for data and inline
|
1382 |
|
|
// types to the database
|
1383 |
|
|
for (DistributionSection distributionSection : allDistributionSections) {
|
1384 |
|
|
// we're only interested in data and inline distributions
|
1385 |
|
|
int distributionType = distributionSection.getDistributionType();
|
1386 |
|
|
if (distributionType == DistributionSection.DATA_DISTRIBUTION
|
1387 |
|
|
|| distributionType == DistributionSection.INLINE_DATA_DISTRIBUTION) {
|
1388 |
|
|
AccessSection accessSection = distributionSection.getAccessSection();
|
1389 |
|
|
|
1390 |
|
|
// If the distribution doesn't have an access section, we continue.
|
1391 |
|
|
if (accessSection == null) {
|
1392 |
|
|
continue;
|
1393 |
7137
|
leinfelder
|
}
|
1394 |
4678
|
daigle
|
|
1395 |
7137
|
leinfelder
|
// check for denyFirst permOrder
|
1396 |
|
|
String permOrder = accessSection.getPermissionOrder();
|
1397 |
|
|
if (permOrder.equals(AccessControlInterface.DENYFIRST) && ignoreDenyFirst) {
|
1398 |
|
|
logMetacat.warn("Metacat no longer supports EML 'denyFirst' access rules - ignoring this access block: " + distributionSection.getDataFileName());
|
1399 |
|
|
continue;
|
1400 |
|
|
}
|
1401 |
|
|
|
1402 |
4678
|
daigle
|
// We want to check file permissions for all online data updates and inserts, or for
|
1403 |
|
|
// inline updates.
|
1404 |
|
|
// if (distributionType == DistributionSection.DATA_DISTRIBUTION
|
1405 |
|
|
// || (distributionType == DistributionSection.INLINE_DATA_DISTRIBUTION && action == "UPDATE")) {
|
1406 |
2169
|
sgarg
|
|
1407 |
4678
|
daigle
|
if (distributionType == DistributionSection.DATA_DISTRIBUTION) {
|
1408 |
|
|
try {
|
1409 |
6746
|
leinfelder
|
// check for the previous version for permissions on update
|
1410 |
7293
|
leinfelder
|
// we need to look up the docid from the guid, if we have it
|
1411 |
6746
|
leinfelder
|
String dataDocid = distributionSection.getDataFileName();
|
1412 |
7293
|
leinfelder
|
try {
|
1413 |
|
|
dataDocid = IdentifierManager.getInstance().getLocalId(dataDocid);
|
1414 |
|
|
} catch (McdbDocNotFoundException mcdbnfe) {
|
1415 |
|
|
// ignore
|
1416 |
|
|
logMetacat.warn("Could not find guid/docid mapping for " + dataDocid);
|
1417 |
|
|
}
|
1418 |
6746
|
leinfelder
|
String previousDocid = dataDocid;
|
1419 |
|
|
if (action == "UPDATE") {
|
1420 |
|
|
String docidWithoutRev = DocumentUtil.getDocIdFromString(dataDocid);
|
1421 |
|
|
int latestRevision = DBUtil.getLatestRevisionInDocumentTable(docidWithoutRev);
|
1422 |
|
|
if (latestRevision > 0) {
|
1423 |
6748
|
leinfelder
|
previousDocid = docidWithoutRev + PropertyService.getProperty("document.accNumSeparator") + latestRevision;
|
1424 |
6746
|
leinfelder
|
}
|
1425 |
|
|
}
|
1426 |
|
|
|
1427 |
8178
|
leinfelder
|
// check both the previous and current data permissions
|
1428 |
|
|
// see: https://projects.ecoinformatics.org/ecoinfo/issues/5647
|
1429 |
6744
|
leinfelder
|
PermissionController controller = new PermissionController(previousDocid);
|
1430 |
8178
|
leinfelder
|
PermissionController currentController = new PermissionController(dataDocid);
|
1431 |
|
|
|
1432 |
4769
|
daigle
|
if (AccessionNumber.accNumberUsed(docid)
|
1433 |
8178
|
leinfelder
|
&&
|
1434 |
|
|
!(controller.hasPermission(user, groups, "WRITE")
|
1435 |
|
|
|| currentController.hasPermission(user, groups, "WRITE")
|
1436 |
|
|
)
|
1437 |
|
|
) {
|
1438 |
|
|
throw new SAXException(UPDATEACCESSERROR + " id: " + dataDocid);
|
1439 |
4678
|
daigle
|
}
|
1440 |
|
|
} catch (SQLException sqle) {
|
1441 |
|
|
throw new SAXException(
|
1442 |
|
|
"Database error checking user permissions: "
|
1443 |
|
|
+ sqle.getMessage());
|
1444 |
|
|
} catch (Exception e) {
|
1445 |
|
|
throw new SAXException(
|
1446 |
|
|
"General error checking user permissions: "
|
1447 |
|
|
+ e.getMessage());
|
1448 |
|
|
}
|
1449 |
|
|
} else if (distributionType == DistributionSection.INLINE_DATA_DISTRIBUTION && action == "UPDATE") {
|
1450 |
|
|
try {
|
1451 |
6744
|
leinfelder
|
|
1452 |
|
|
// check for the previous version for permissions
|
1453 |
|
|
int latestRevision = DBUtil.getLatestRevisionInDocumentTable(docid);
|
1454 |
|
|
String previousDocid =
|
1455 |
|
|
docid + PropertyService.getProperty("document.accNumSeparator") + latestRevision;
|
1456 |
|
|
PermissionController controller = new PermissionController(previousDocid);
|
1457 |
2169
|
sgarg
|
|
1458 |
4678
|
daigle
|
if (!controller.hasPermission(user, groups, "WRITE")) {
|
1459 |
|
|
throw new SAXException(UPDATEACCESSERROR);
|
1460 |
|
|
}
|
1461 |
|
|
} catch (SQLException sqle) {
|
1462 |
|
|
throw new SAXException(
|
1463 |
|
|
"Database error checking user permissions: "
|
1464 |
|
|
+ sqle.getMessage());
|
1465 |
|
|
} catch (Exception e) {
|
1466 |
|
|
throw new SAXException(
|
1467 |
|
|
"General error checking user permissions: "
|
1468 |
|
|
+ e.getMessage());
|
1469 |
|
|
}
|
1470 |
|
|
}
|
1471 |
|
|
|
1472 |
6749
|
leinfelder
|
// clear previous versions first
|
1473 |
|
|
deleteAccessRule(accessSection, false);
|
1474 |
|
|
|
1475 |
|
|
// now write the new ones
|
1476 |
4678
|
daigle
|
String subSectionId = Integer.toString(distributionSection.getDistributionId());
|
1477 |
|
|
writeGivenAccessRuleIntoDB(accessSection, false, subSectionId);
|
1478 |
|
|
}
|
1479 |
2169
|
sgarg
|
|
1480 |
4678
|
daigle
|
}
|
1481 |
|
|
|
1482 |
|
|
|
1483 |
|
|
}
|
1484 |
6749
|
leinfelder
|
|
1485 |
|
|
/**
|
1486 |
|
|
* delete existing access for given access rule
|
1487 |
|
|
*
|
1488 |
|
|
*/
|
1489 |
|
|
private void deleteAccessRule(AccessSection accessSection, boolean topLevel) throws SAXException {
|
1490 |
|
|
|
1491 |
|
|
if (accessSection == null) {
|
1492 |
|
|
throw new SAXException("The access object is null");
|
1493 |
|
|
}
|
1494 |
|
|
|
1495 |
|
|
PreparedStatement pstmt = null;
|
1496 |
2169
|
sgarg
|
|
1497 |
6749
|
leinfelder
|
String sql = null;
|
1498 |
|
|
sql = "DELETE FROM xml_access WHERE guid = ?";
|
1499 |
|
|
|
1500 |
|
|
try {
|
1501 |
|
|
|
1502 |
|
|
pstmt = connection.prepareStatement(sql);
|
1503 |
|
|
// Increase DBConnection usage count
|
1504 |
|
|
connection.increaseUsageCount(1);
|
1505 |
|
|
// Bind the values to the query
|
1506 |
|
|
String guid = null;
|
1507 |
|
|
if (topLevel) {
|
1508 |
|
|
try {
|
1509 |
|
|
guid = IdentifierManager.getInstance().getGUID(docid, Integer.valueOf(revision));
|
1510 |
|
|
} catch (NumberFormatException e) {
|
1511 |
|
|
throw new SAXException(e.getMessage(), e);
|
1512 |
|
|
} catch (McdbDocNotFoundException e) {
|
1513 |
|
|
// register the default mapping now
|
1514 |
|
|
guid = docid + "." + revision;
|
1515 |
|
|
IdentifierManager.getInstance().createMapping(guid, guid);
|
1516 |
|
|
}
|
1517 |
|
|
} else {
|
1518 |
|
|
guid = accessSection.getDataFileName();
|
1519 |
|
|
|
1520 |
|
|
}
|
1521 |
|
|
pstmt.setString(1, guid);
|
1522 |
|
|
logMetacat.debug("guid in accesstable: " + guid);
|
1523 |
|
|
|
1524 |
|
|
logMetacat.debug("running sql: " + pstmt.toString());
|
1525 |
|
|
pstmt.execute();
|
1526 |
|
|
|
1527 |
|
|
pstmt.close();
|
1528 |
|
|
}// try
|
1529 |
|
|
catch (SQLException e) {
|
1530 |
|
|
throw new SAXException("EMLSAXHandler.deleteAccessRule(): "
|
1531 |
|
|
+ e.getMessage());
|
1532 |
|
|
}// catch
|
1533 |
|
|
finally {
|
1534 |
|
|
try {
|
1535 |
|
|
pstmt.close();
|
1536 |
|
|
} catch (SQLException ee) {
|
1537 |
|
|
throw new SAXException("EMLSAXHandler.deleteAccessRule(): "
|
1538 |
|
|
+ ee.getMessage());
|
1539 |
|
|
}
|
1540 |
|
|
}// finally
|
1541 |
|
|
|
1542 |
|
|
}
|
1543 |
|
|
|
1544 |
4678
|
daigle
|
/* Write a given access rule into db */
|
1545 |
|
|
private void writeGivenAccessRuleIntoDB(AccessSection accessSection,
|
1546 |
|
|
boolean topLevel, String subSectionId) throws SAXException {
|
1547 |
|
|
if (accessSection == null) {
|
1548 |
|
|
throw new SAXException("The access object is null");
|
1549 |
|
|
}
|
1550 |
2169
|
sgarg
|
|
1551 |
6744
|
leinfelder
|
String guid = null;
|
1552 |
6802
|
leinfelder
|
String referencedGuid = accessSection.getDataFileName();
|
1553 |
|
|
|
1554 |
6744
|
leinfelder
|
try {
|
1555 |
|
|
guid = IdentifierManager.getInstance().getGUID(docid, Integer.valueOf(revision));
|
1556 |
|
|
} catch (NumberFormatException e) {
|
1557 |
|
|
throw new SAXException(e.getMessage(), e);
|
1558 |
|
|
} catch (McdbDocNotFoundException e) {
|
1559 |
|
|
// register the default mapping now
|
1560 |
|
|
guid = docid + "." + revision;
|
1561 |
|
|
IdentifierManager.getInstance().createMapping(guid, guid);
|
1562 |
|
|
}
|
1563 |
|
|
|
1564 |
4678
|
daigle
|
String permOrder = accessSection.getPermissionOrder();
|
1565 |
6019
|
leinfelder
|
String sql = null;
|
1566 |
|
|
PreparedStatement pstmt = null;
|
1567 |
4678
|
daigle
|
if (topLevel) {
|
1568 |
6744
|
leinfelder
|
sql = "INSERT INTO xml_access (guid, principal_name, permission, "
|
1569 |
6019
|
leinfelder
|
+ "perm_type, perm_order, accessfileid) VALUES "
|
1570 |
|
|
+ " (?, ?, ?, ?, ?, ?)";
|
1571 |
4678
|
daigle
|
} else {
|
1572 |
6744
|
leinfelder
|
sql = "INSERT INTO xml_access (guid,principal_name, "
|
1573 |
6019
|
leinfelder
|
+ "permission, perm_type, perm_order, accessfileid, subtreeid"
|
1574 |
|
|
+ ") VALUES" + " (?, ?, ?, ?, ?, ?, ?)";
|
1575 |
4678
|
daigle
|
}
|
1576 |
|
|
try {
|
1577 |
2169
|
sgarg
|
|
1578 |
6019
|
leinfelder
|
pstmt = connection.prepareStatement(sql);
|
1579 |
|
|
// Increase DBConnection usage count
|
1580 |
|
|
connection.increaseUsageCount(1);
|
1581 |
|
|
// Bind the values to the query
|
1582 |
6744
|
leinfelder
|
pstmt.setString(6, guid);
|
1583 |
|
|
logMetacat.debug("Accessfileid in accesstable: " + guid);
|
1584 |
6019
|
leinfelder
|
pstmt.setString(5, permOrder);
|
1585 |
|
|
logMetacat.debug("PermOder in accesstable: " + permOrder);
|
1586 |
|
|
// if it is not top level, set subsection id
|
1587 |
|
|
if (topLevel) {
|
1588 |
6744
|
leinfelder
|
pstmt.setString(1, guid);
|
1589 |
|
|
logMetacat.debug("Guid in accesstable: " + guid);
|
1590 |
6019
|
leinfelder
|
}
|
1591 |
|
|
if (!topLevel) {
|
1592 |
6802
|
leinfelder
|
// use the referenced guid
|
1593 |
|
|
pstmt.setString(1, referencedGuid );
|
1594 |
6019
|
leinfelder
|
logMetacat.debug("Docid in accesstable: " + inlineDataFileName);
|
1595 |
|
|
|
1596 |
|
|
// for subtree should specify the
|
1597 |
|
|
if (subSectionId == null) {
|
1598 |
|
|
throw new SAXException("The subsection is null");
|
1599 |
|
|
}
|
1600 |
|
|
|
1601 |
|
|
pstmt.setString(7, subSectionId);
|
1602 |
|
|
logMetacat.debug("SubSectionId in accesstable: " + subSectionId);
|
1603 |
8560
|
slaughter
|
|
1604 |
|
|
// Save guid of data object for syncing of access policy with CN after parsing
|
1605 |
|
|
// is successful (see DocumentImpl.write)
|
1606 |
|
|
guidsToSync.add(referencedGuid);
|
1607 |
6019
|
leinfelder
|
}
|
1608 |
|
|
|
1609 |
4678
|
daigle
|
Vector<AccessRule> accessRules = accessSection.getAccessRules();
|
1610 |
|
|
// go through every rule
|
1611 |
|
|
for (int i = 0; i < accessRules.size(); i++) {
|
1612 |
|
|
AccessRule rule = accessRules.elementAt(i);
|
1613 |
|
|
String permType = rule.getPermissionType();
|
1614 |
|
|
int permission = rule.getPermission();
|
1615 |
6019
|
leinfelder
|
pstmt.setInt(3, permission);
|
1616 |
4678
|
daigle
|
logMetacat.debug("permission in accesstable: " + permission);
|
1617 |
6019
|
leinfelder
|
pstmt.setString(4, permType);
|
1618 |
4678
|
daigle
|
logMetacat.debug("Permtype in accesstable: " + permType);
|
1619 |
|
|
// go through every principle in rule
|
1620 |
|
|
Vector<String> nameVector = rule.getPrincipal();
|
1621 |
|
|
for (int j = 0; j < nameVector.size(); j++) {
|
1622 |
|
|
String prName = nameVector.elementAt(j);
|
1623 |
6019
|
leinfelder
|
pstmt.setString(2, prName);
|
1624 |
4678
|
daigle
|
logMetacat.debug("Principal in accesstable: " + prName);
|
1625 |
6019
|
leinfelder
|
logMetacat.debug("running sql: " + pstmt.toString());
|
1626 |
|
|
pstmt.execute();
|
1627 |
4678
|
daigle
|
}// for
|
1628 |
|
|
}// for
|
1629 |
6019
|
leinfelder
|
pstmt.close();
|
1630 |
4678
|
daigle
|
}// try
|
1631 |
6019
|
leinfelder
|
catch (SQLException e) {
|
1632 |
4678
|
daigle
|
throw new SAXException("EMLSAXHandler.writeAccessRuletoDB(): "
|
1633 |
|
|
+ e.getMessage());
|
1634 |
|
|
}// catch
|
1635 |
6019
|
leinfelder
|
finally {
|
1636 |
|
|
try {
|
1637 |
|
|
pstmt.close();
|
1638 |
|
|
} catch (SQLException ee) {
|
1639 |
|
|
throw new SAXException("EMLSAXHandler.writeAccessRuletoDB(): "
|
1640 |
|
|
+ ee.getMessage());
|
1641 |
|
|
}
|
1642 |
|
|
}// finally
|
1643 |
6802
|
leinfelder
|
|
1644 |
|
|
// for D1, refresh the entries
|
1645 |
|
|
HazelcastService.getInstance().refreshSystemMetadataEntry(guid);
|
1646 |
|
|
HazelcastService.getInstance().refreshSystemMetadataEntry(referencedGuid);
|
1647 |
2169
|
sgarg
|
|
1648 |
4678
|
daigle
|
}// writeGivenAccessRuleIntoDB
|
1649 |
2169
|
sgarg
|
|
1650 |
6744
|
leinfelder
|
/* Delete from db all permission for resources related to the document, if any */
|
1651 |
|
|
private void deletePermissionsInAccessTable() throws SAXException {
|
1652 |
6606
|
leinfelder
|
PreparedStatement pstmt = null;
|
1653 |
4678
|
daigle
|
try {
|
1654 |
6749
|
leinfelder
|
|
1655 |
6744
|
leinfelder
|
String sql = "DELETE FROM xml_access " +
|
1656 |
6749
|
leinfelder
|
// the file defines access for another file
|
1657 |
|
|
"WHERE accessfileid IN " +
|
1658 |
|
|
"(SELECT guid from identifier where docid = ? and rev = ?) " +
|
1659 |
|
|
// the described file has other versions describing it
|
1660 |
|
|
"OR guid IN " +
|
1661 |
|
|
"(SELECT xa.guid from xml_access xa, identifier id" +
|
1662 |
|
|
" WHERE xa.accessfileid = id.guid " +
|
1663 |
|
|
" AND id.docid = ?" +
|
1664 |
|
|
" AND id.rev = ?)";
|
1665 |
4678
|
daigle
|
// delete all acl records for resources related to @aclid if any
|
1666 |
6606
|
leinfelder
|
pstmt = connection.prepareStatement(sql);
|
1667 |
6744
|
leinfelder
|
pstmt.setString(1, docid);
|
1668 |
|
|
pstmt.setInt(2, Integer.valueOf(revision));
|
1669 |
6749
|
leinfelder
|
// second part of query
|
1670 |
|
|
pstmt.setString(3, docid);
|
1671 |
|
|
pstmt.setInt(4, Integer.valueOf(revision));
|
1672 |
4678
|
daigle
|
// Increase DBConnection usage count
|
1673 |
|
|
connection.increaseUsageCount(1);
|
1674 |
6606
|
leinfelder
|
logMetacat.debug("running sql: " + sql);
|
1675 |
|
|
pstmt.execute();
|
1676 |
4678
|
daigle
|
|
1677 |
|
|
} catch (SQLException e) {
|
1678 |
|
|
throw new SAXException(e.getMessage());
|
1679 |
|
|
} finally {
|
1680 |
|
|
try {
|
1681 |
6606
|
leinfelder
|
pstmt.close();
|
1682 |
4678
|
daigle
|
} catch (SQLException ee) {
|
1683 |
|
|
throw new SAXException(ee.getMessage());
|
1684 |
|
|
}
|
1685 |
|
|
}
|
1686 |
|
|
}// deletePermissionsInAccessTable
|
1687 |
|
|
|
1688 |
|
|
/*
|
1689 |
|
|
* In order to make sure only usr has "all" permission can update access
|
1690 |
|
|
* subtree in eml document we need to keep access subtree info in
|
1691 |
|
|
* xml_accesssubtree table, such as docid, version, startnodeid, endnodeid
|
1692 |
|
|
*/
|
1693 |
|
|
private void writeAccessSubTreeIntoDB(AccessSection accessSection, String level)
|
1694 |
|
|
throws SAXException {
|
1695 |
|
|
if (accessSection == null) {
|
1696 |
|
|
throw new SAXException("The access object is null");
|
1697 |
|
|
}
|
1698 |
|
|
|
1699 |
|
|
String sql = null;
|
1700 |
|
|
PreparedStatement pstmt = null;
|
1701 |
|
|
sql = "INSERT INTO xml_accesssubtree (docid, rev, controllevel, "
|
1702 |
|
|
+ "subtreeid, startnodeid, endnodeid) VALUES " + " (?, ?, ?, ?, ?, ?)";
|
1703 |
|
|
try {
|
1704 |
|
|
|
1705 |
|
|
pstmt = connection.prepareStatement(sql);
|
1706 |
|
|
// Increase DBConnection usage count
|
1707 |
|
|
connection.increaseUsageCount(1);
|
1708 |
|
|
long startNodeId = accessSection.getStartNodeId();
|
1709 |
|
|
long endNodeId = accessSection.getEndNodeId();
|
1710 |
|
|
String sectionId = accessSection.getSubTreeId();
|
1711 |
|
|
// Bind the values to the query
|
1712 |
|
|
pstmt.setString(1, docid);
|
1713 |
|
|
logMetacat.debug("Docid in access-subtreetable: " + docid);
|
1714 |
|
|
pstmt.setLong(2, (new Long(revision)).longValue());
|
1715 |
|
|
logMetacat.debug("rev in accesssubtreetable: " + revision);
|
1716 |
|
|
pstmt.setString(3, level);
|
1717 |
|
|
logMetacat.debug("contorl level in access-subtree table: " + level);
|
1718 |
|
|
pstmt.setString(4, sectionId);
|
1719 |
|
|
logMetacat.debug("Subtree id in access-subtree table: " + sectionId);
|
1720 |
|
|
pstmt.setLong(5, startNodeId);
|
1721 |
|
|
logMetacat.debug("Start node id is: " + startNodeId);
|
1722 |
|
|
pstmt.setLong(6, endNodeId);
|
1723 |
|
|
logMetacat.debug("End node id is: " + endNodeId);
|
1724 |
|
|
logMetacat.debug("running sql: " + pstmt.toString());
|
1725 |
|
|
pstmt.execute();
|
1726 |
|
|
pstmt.close();
|
1727 |
|
|
}// try
|
1728 |
|
|
catch (SQLException e) {
|
1729 |
|
|
throw new SAXException("EMLSAXHandler.writeAccessSubTreeIntoDB(): "
|
1730 |
|
|
+ e.getMessage());
|
1731 |
|
|
}// catch
|
1732 |
|
|
finally {
|
1733 |
|
|
try {
|
1734 |
|
|
pstmt.close();
|
1735 |
|
|
} catch (SQLException ee) {
|
1736 |
|
|
throw new SAXException("EMLSAXHandler.writeAccessSubTreeIntoDB(): "
|
1737 |
|
|
+ ee.getMessage());
|
1738 |
|
|
}
|
1739 |
|
|
}// finally
|
1740 |
|
|
|
1741 |
|
|
}// writeAccessSubtreeIntoDB
|
1742 |
|
|
|
1743 |
|
|
/* Delete every access subtree record from xml_accesssubtree. */
|
1744 |
|
|
private void deleteAccessSubTreeRecord(String docId) throws SAXException {
|
1745 |
6606
|
leinfelder
|
PreparedStatement pstmt = null;
|
1746 |
4678
|
daigle
|
try {
|
1747 |
6606
|
leinfelder
|
String sql = "DELETE FROM xml_accesssubtree WHERE docid = ?";
|
1748 |
4678
|
daigle
|
// delete all acl records for resources related to @aclid if any
|
1749 |
6606
|
leinfelder
|
pstmt = connection.prepareStatement(sql);
|
1750 |
|
|
pstmt.setString(1, docId);
|
1751 |
4678
|
daigle
|
// Increase DBConnection usage count
|
1752 |
|
|
connection.increaseUsageCount(1);
|
1753 |
6606
|
leinfelder
|
logMetacat.debug("running sql: " + sql);
|
1754 |
|
|
pstmt.execute();
|
1755 |
4678
|
daigle
|
|
1756 |
|
|
} catch (SQLException e) {
|
1757 |
|
|
throw new SAXException(e.getMessage());
|
1758 |
|
|
} finally {
|
1759 |
|
|
try {
|
1760 |
6606
|
leinfelder
|
pstmt.close();
|
1761 |
4678
|
daigle
|
} catch (SQLException ee) {
|
1762 |
|
|
throw new SAXException(ee.getMessage());
|
1763 |
|
|
}
|
1764 |
|
|
}
|
1765 |
|
|
}// deleteAccessSubTreeRecord
|
1766 |
|
|
|
1767 |
|
|
// open a file writer for writing inline data to file
|
1768 |
5752
|
leinfelder
|
private Writer createInlineDataFileWriter(String fileName, String encoding) throws SAXException {
|
1769 |
|
|
Writer writer = null;
|
1770 |
4678
|
daigle
|
String path;
|
1771 |
|
|
try {
|
1772 |
|
|
path = PropertyService.getProperty("application.inlinedatafilepath");
|
1773 |
|
|
} catch (PropertyNotFoundException pnfe) {
|
1774 |
|
|
throw new SAXException(pnfe.getMessage());
|
1775 |
|
|
}
|
1776 |
|
|
/*
|
1777 |
|
|
* File inlineDataDirectory = new File(path);
|
1778 |
|
|
*/
|
1779 |
|
|
String newFile = path + "/" + fileName;
|
1780 |
|
|
logMetacat.debug("inline file name: " + newFile);
|
1781 |
|
|
try {
|
1782 |
|
|
// true means append
|
1783 |
5752
|
leinfelder
|
writer = new OutputStreamWriter(new FileOutputStream(newFile, true), encoding);
|
1784 |
4678
|
daigle
|
} catch (IOException ioe) {
|
1785 |
|
|
throw new SAXException(ioe.getMessage());
|
1786 |
|
|
}
|
1787 |
|
|
return writer;
|
1788 |
|
|
}
|
1789 |
|
|
|
1790 |
|
|
// write inline data into file system and return file name(without path)
|
1791 |
5752
|
leinfelder
|
private void writeInlineDataIntoFile(Writer writer, StringBuffer data)
|
1792 |
4678
|
daigle
|
throws SAXException {
|
1793 |
|
|
try {
|
1794 |
|
|
writer.write(data.toString());
|
1795 |
|
|
writer.flush();
|
1796 |
|
|
} catch (Exception e) {
|
1797 |
|
|
throw new SAXException(e.getMessage());
|
1798 |
|
|
}
|
1799 |
|
|
}
|
1800 |
|
|
|
1801 |
4080
|
daigle
|
|
1802 |
2169
|
sgarg
|
|
1803 |
4678
|
daigle
|
// if xml file failed to upload, we need to call this method to delete
|
1804 |
|
|
// the inline data already in file system
|
1805 |
|
|
public void deleteInlineFiles() throws SAXException {
|
1806 |
|
|
if (!inlineFileIdList.isEmpty()) {
|
1807 |
|
|
for (int i = 0; i < inlineFileIdList.size(); i++) {
|
1808 |
|
|
String fileName = inlineFileIdList.elementAt(i);
|
1809 |
|
|
deleteInlineDataFile(fileName);
|
1810 |
|
|
}
|
1811 |
|
|
}
|
1812 |
|
|
}
|
1813 |
2169
|
sgarg
|
|
1814 |
4678
|
daigle
|
/* delete the inline data file */
|
1815 |
|
|
private void deleteInlineDataFile(String fileName) throws SAXException {
|
1816 |
|
|
String path;
|
1817 |
|
|
try {
|
1818 |
|
|
path = PropertyService.getProperty("application.inlinedatafilepath");
|
1819 |
|
|
} catch (PropertyNotFoundException pnfe) {
|
1820 |
|
|
throw new SAXException("Could not find inline data file path: "
|
1821 |
|
|
+ pnfe.getMessage());
|
1822 |
|
|
}
|
1823 |
|
|
File inlineDataDirectory = new File(path);
|
1824 |
|
|
File newFile = new File(inlineDataDirectory, fileName);
|
1825 |
|
|
newFile.delete();
|
1826 |
2169
|
sgarg
|
|
1827 |
4678
|
daigle
|
}
|
1828 |
2169
|
sgarg
|
|
1829 |
4678
|
daigle
|
/* Delete relations */
|
1830 |
|
|
private void deleteRelations() throws SAXException {
|
1831 |
|
|
PreparedStatement pStmt = null;
|
1832 |
|
|
String sql = "DELETE FROM xml_relation where docid =?";
|
1833 |
|
|
try {
|
1834 |
|
|
pStmt = connection.prepareStatement(sql);
|
1835 |
|
|
// bind variable
|
1836 |
|
|
pStmt.setString(1, docid);
|
1837 |
|
|
// execute query
|
1838 |
|
|
pStmt.execute();
|
1839 |
|
|
pStmt.close();
|
1840 |
|
|
}// try
|
1841 |
|
|
catch (SQLException e) {
|
1842 |
|
|
throw new SAXException("EMLSAXHandler.deleteRelations(): " + e.getMessage());
|
1843 |
|
|
}// catch
|
1844 |
|
|
finally {
|
1845 |
|
|
try {
|
1846 |
|
|
pStmt.close();
|
1847 |
|
|
}// try
|
1848 |
|
|
catch (SQLException ee) {
|
1849 |
|
|
throw new SAXException("EMLSAXHandler.deleteRelations: "
|
1850 |
|
|
+ ee.getMessage());
|
1851 |
|
|
}// catch
|
1852 |
|
|
}// finally
|
1853 |
|
|
}
|
1854 |
2169
|
sgarg
|
|
1855 |
4678
|
daigle
|
/*
|
1856 |
|
|
* Write an online data file id into xml_relation table. The dataId
|
1857 |
|
|
* shouldnot have the revision
|
1858 |
|
|
*/
|
1859 |
|
|
private void writeOnlineDataFileIdIntoRelationTable(String dataId)
|
1860 |
|
|
throws SAXException {
|
1861 |
|
|
PreparedStatement pStmt = null;
|
1862 |
|
|
String sql = "INSERT into xml_relation (docid, packagetype, subject, "
|
1863 |
|
|
+ "relationship, object) values (?, ?, ?, ?, ?)";
|
1864 |
|
|
try {
|
1865 |
|
|
pStmt = connection.prepareStatement(sql);
|
1866 |
|
|
// bind variable
|
1867 |
|
|
pStmt.setString(1, docid);
|
1868 |
5709
|
leinfelder
|
pStmt.setString(2, doctype); //DocumentImpl.EML2_1_0NAMESPACE);
|
1869 |
4678
|
daigle
|
pStmt.setString(3, docid);
|
1870 |
|
|
pStmt.setString(4, RELATION);
|
1871 |
|
|
pStmt.setString(5, dataId);
|
1872 |
|
|
// execute query
|
1873 |
|
|
pStmt.execute();
|
1874 |
|
|
pStmt.close();
|
1875 |
|
|
}// try
|
1876 |
|
|
catch (SQLException e) {
|
1877 |
|
|
throw new SAXException(
|
1878 |
|
|
"EMLSAXHandler.writeOnlineDataFileIdIntoRelationTable(): "
|
1879 |
|
|
+ e.getMessage());
|
1880 |
|
|
}// catch
|
1881 |
|
|
finally {
|
1882 |
|
|
try {
|
1883 |
|
|
pStmt.close();
|
1884 |
|
|
}// try
|
1885 |
|
|
catch (SQLException ee) {
|
1886 |
|
|
throw new SAXException(
|
1887 |
|
|
"EMLSAXHandler.writeOnlineDataFileIdIntoRelationTable(): "
|
1888 |
|
|
+ ee.getMessage());
|
1889 |
|
|
}// catch
|
1890 |
|
|
}// finally
|
1891 |
2169
|
sgarg
|
|
1892 |
4678
|
daigle
|
}// writeOnlineDataFileIdIntoRelationTable
|
1893 |
2169
|
sgarg
|
|
1894 |
4678
|
daigle
|
/*
|
1895 |
|
|
* This method will handle data file in online url. If the data file is in
|
1896 |
|
|
* ecogrid protocol, then the datafile identifier(without rev)should be put
|
1897 |
|
|
* into onlineDataFileRelationVector. The docid in this vector will be
|
1898 |
|
|
* insert into xml_relation table in endDocument(). If the data file doesn't
|
1899 |
|
|
* exsit in xml_documents or xml_revision table, or the user has all
|
1900 |
|
|
* permission to the data file if the docid already existed, the data file
|
1901 |
|
|
* id (without rev)will be put into onlineDataFileTopAccessVector. The top
|
1902 |
|
|
* access rules specified in this eml document will apply to the data file.
|
1903 |
|
|
* NEED to do: We should also need to implement http and ftp. Those external
|
1904 |
|
|
* files should be download and assign a data file id to it.
|
1905 |
|
|
*/
|
1906 |
|
|
private void handleOnlineUrlDataFile(String url) throws SAXException {
|
1907 |
|
|
logMetacat.warn("The url is " + url);
|
1908 |
2169
|
sgarg
|
|
1909 |
4678
|
daigle
|
if (currentDistributionSection == null) {
|
1910 |
|
|
throw new SAXException("Trying to set the online file name for a null"
|
1911 |
|
|
+ " distribution section");
|
1912 |
|
|
}
|
1913 |
|
|
|
1914 |
|
|
// if the url is not in ecogrid protocol, null will be returned
|
1915 |
5025
|
daigle
|
String accessionNumber = DocumentUtil.getAccessionNumberFromEcogridIdentifier(url);
|
1916 |
7112
|
leinfelder
|
|
1917 |
|
|
// check he accession number and get docid.rev if we can
|
1918 |
|
|
String docid = null;
|
1919 |
|
|
int rev = 0;
|
1920 |
|
|
if (accessionNumber != null) {
|
1921 |
|
|
// get rid of revision number to get the docid.
|
1922 |
|
|
try {
|
1923 |
|
|
docid = DocumentUtil.getDocIdFromAccessionNumber(accessionNumber);
|
1924 |
|
|
rev = DocumentUtil.getRevisionFromAccessionNumber(accessionNumber);
|
1925 |
|
|
} catch (Exception e) {
|
1926 |
|
|
logMetacat.warn(e.getClass().getName() + " - Problem parsing accession number for: " + accessionNumber + ". Message: " + e.getMessage());
|
1927 |
|
|
accessionNumber = null;
|
1928 |
|
|
}
|
1929 |
|
|
}
|
1930 |
|
|
|
1931 |
4678
|
daigle
|
if (accessionNumber == null) {
|
1932 |
|
|
// the accession number is null if the url does not references a
|
1933 |
|
|
// local data file (url would start with "ecogrid://"
|
1934 |
|
|
currentDistributionSection
|
1935 |
|
|
.setDistributionType(DistributionSection.ONLINE_DATA_DISTRIBUTION);
|
1936 |
|
|
} else {
|
1937 |
7112
|
leinfelder
|
// look up the guid using docid/rev
|
1938 |
6744
|
leinfelder
|
String guid = null;
|
1939 |
|
|
try {
|
1940 |
|
|
guid = IdentifierManager.getInstance().getGUID(docid, rev);
|
1941 |
|
|
} catch (McdbDocNotFoundException e1) {
|
1942 |
7135
|
leinfelder
|
// no need to do this if we are not writing access rules for the data
|
1943 |
|
|
if (!writeAccessRules) {
|
1944 |
|
|
logMetacat.warn("Not configured to write access rules for data referenced by: " + url);
|
1945 |
|
|
return;
|
1946 |
|
|
}
|
1947 |
6744
|
leinfelder
|
guid = docid + "." + rev;
|
1948 |
|
|
IdentifierManager.getInstance().createMapping(guid, guid);
|
1949 |
|
|
}
|
1950 |
4678
|
daigle
|
|
1951 |
|
|
currentDistributionSection
|
1952 |
|
|
.setDistributionType(DistributionSection.DATA_DISTRIBUTION);
|
1953 |
6744
|
leinfelder
|
currentDistributionSection.setDataFileName(guid);
|
1954 |
4678
|
daigle
|
|
1955 |
|
|
// distributionOnlineFileName = docid;
|
1956 |
6746
|
leinfelder
|
onlineDataFileIdInRelationVector.add(guid);
|
1957 |
4733
|
daigle
|
try {
|
1958 |
4678
|
daigle
|
if (!AccessionNumber.accNumberUsed(docid)) {
|
1959 |
6746
|
leinfelder
|
onlineDataFileIdInTopAccessVector.add(guid);
|
1960 |
4678
|
daigle
|
} else {
|
1961 |
6746
|
leinfelder
|
// check the previous revision if we have it
|
1962 |
|
|
int previousRevision = rev;
|
1963 |
|
|
Vector<Integer> revisions = DBUtil.getRevListFromRevisionTable(docid);
|
1964 |
|
|
if (revisions != null && revisions.size() > 0) {
|
1965 |
|
|
previousRevision = revisions.get(revisions.size() - 1);
|
1966 |
|
|
}
|
1967 |
|
|
String previousDocid =
|
1968 |
|
|
docid + PropertyService.getProperty("document.accNumSeparator") + previousRevision;
|
1969 |
8178
|
leinfelder
|
|
1970 |
|
|
// check EITHER previous or current id for access rules
|
1971 |
|
|
// see: https://projects.ecoinformatics.org/ecoinfo/issues/5647
|
1972 |
|
|
PermissionController previousController = new PermissionController(previousDocid);
|
1973 |
|
|
PermissionController currentController = new PermissionController(accessionNumber);
|
1974 |
|
|
if (previousController.hasPermission(user, groups, AccessControlInterface.ALLSTRING)
|
1975 |
|
|
|| currentController.hasPermission(user, groups, AccessControlInterface.ALLSTRING)
|
1976 |
|
|
) {
|
1977 |
6746
|
leinfelder
|
onlineDataFileIdInTopAccessVector.add(guid);
|
1978 |
4733
|
daigle
|
} else {
|
1979 |
|
|
throw new SAXException(UPDATEACCESSERROR);
|
1980 |
|
|
}
|
1981 |
|
|
}
|
1982 |
4678
|
daigle
|
}// try
|
1983 |
|
|
catch (Exception e) {
|
1984 |
|
|
logMetacat.error("Eorr in "
|
1985 |
|
|
+ "Eml210SAXHanlder.handleOnlineUrlDataFile is "
|
1986 |
|
|
+ e.getMessage());
|
1987 |
|
|
throw new SAXException(e.getMessage());
|
1988 |
|
|
}
|
1989 |
|
|
}
|
1990 |
|
|
}
|
1991 |
2169
|
sgarg
|
}
|