|
1
|
/**
|
|
2
|
* '$RCSfile$'
|
|
3
|
* Copyright: 2000 Regents of the University of California and the
|
|
4
|
* National Center for Ecological Analysis and Synthesis
|
|
5
|
*
|
|
6
|
* '$Author: Serhan AKIN $'
|
|
7
|
* '$Date: 2009-06-13 15:28:13 +0300 $'
|
|
8
|
*
|
|
9
|
* This program is free software; you can redistribute it and/or modify
|
|
10
|
* it under the terms of the GNU General Public License as published by
|
|
11
|
* the Free Software Foundation; either version 2 of the License, or
|
|
12
|
* (at your option) any later version.
|
|
13
|
*
|
|
14
|
* This program is distributed in the hope that it will be useful,
|
|
15
|
* but WITHOUT ANY WARRANTY; without even the implied warranty of
|
|
16
|
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
|
|
17
|
* GNU General Public License for more details.
|
|
18
|
*
|
|
19
|
* You should have received a copy of the GNU General Public License
|
|
20
|
* along with this program; if not, write to the Free Software
|
|
21
|
* Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
|
|
22
|
*/
|
|
23
|
package edu.ucsb.nceas.metacat.restservice;
|
|
24
|
|
|
25
|
import java.io.*;
|
|
26
|
import java.util.*;
|
|
27
|
|
|
28
|
import javax.mail.BodyPart;
|
|
29
|
import javax.mail.MessagingException;
|
|
30
|
import javax.mail.internet.MimeMultipart;
|
|
31
|
import javax.servlet.ServletContext;
|
|
32
|
import javax.servlet.http.HttpServletRequest;
|
|
33
|
import javax.servlet.http.HttpServletResponse;
|
|
34
|
import java.text.DateFormat;
|
|
35
|
import java.text.ParseException;
|
|
36
|
import java.text.ParsePosition;
|
|
37
|
import java.text.SimpleDateFormat;
|
|
38
|
|
|
39
|
|
|
40
|
import org.apache.commons.httpclient.util.DateParser;
|
|
41
|
import org.apache.commons.io.IOUtils;
|
|
42
|
import org.apache.log4j.Logger;
|
|
43
|
import org.apache.maven.artifact.ant.shaded.IOUtil;
|
|
44
|
import org.dataone.service.exceptions.BaseException;
|
|
45
|
import org.dataone.service.exceptions.IdentifierNotUnique;
|
|
46
|
import org.dataone.service.exceptions.InsufficientResources;
|
|
47
|
import org.dataone.service.exceptions.InvalidRequest;
|
|
48
|
import org.dataone.service.exceptions.InvalidSystemMetadata;
|
|
49
|
import org.dataone.service.exceptions.InvalidToken;
|
|
50
|
import org.dataone.service.exceptions.NotAuthorized;
|
|
51
|
import org.dataone.service.exceptions.NotImplemented;
|
|
52
|
import org.dataone.service.exceptions.ServiceFailure;
|
|
53
|
import org.dataone.service.exceptions.UnsupportedType;
|
|
54
|
import org.dataone.service.exceptions.NotFound;
|
|
55
|
import org.dataone.service.types.*;
|
|
56
|
import org.jibx.runtime.BindingDirectory;
|
|
57
|
import org.jibx.runtime.IBindingFactory;
|
|
58
|
import org.jibx.runtime.IMarshallingContext;
|
|
59
|
import org.jibx.runtime.IUnmarshallingContext;
|
|
60
|
import org.jibx.runtime.JiBXException;
|
|
61
|
|
|
62
|
import edu.ucsb.nceas.metacat.DBUtil;
|
|
63
|
import edu.ucsb.nceas.metacat.IdentifierManager;
|
|
64
|
import edu.ucsb.nceas.metacat.McdbDocNotFoundException;
|
|
65
|
import edu.ucsb.nceas.metacat.MetacatHandler;
|
|
66
|
import edu.ucsb.nceas.metacat.client.InsufficientKarmaException;
|
|
67
|
import edu.ucsb.nceas.metacat.dataone.CrudService;
|
|
68
|
import edu.ucsb.nceas.metacat.properties.PropertyService;
|
|
69
|
import edu.ucsb.nceas.metacat.service.SessionService;
|
|
70
|
import edu.ucsb.nceas.metacat.util.RequestUtil;
|
|
71
|
import edu.ucsb.nceas.metacat.util.SessionData;
|
|
72
|
import edu.ucsb.nceas.utilities.PropertyNotFoundException;
|
|
73
|
|
|
74
|
import org.dataone.service.streaming.util.StreamUtil;
|
|
75
|
|
|
76
|
import com.gc.iotools.stream.is.InputStreamFromOutputStream;
|
|
77
|
/**
|
|
78
|
*
|
|
79
|
* Implements Earthgrid REST API to Metacat <br/><br/>
|
|
80
|
*
|
|
81
|
* <ul>
|
|
82
|
* <li>
|
|
83
|
* <h3> EarthGrid Query Service</h3>
|
|
84
|
* <ul><li>
|
|
85
|
* <h3>Get & Authenticated Get:</h3>
|
|
86
|
* is equal to Metacat's read action and returns a data file having
|
|
87
|
* the specified <doc-id> in the resource path. For authenticated Get service, a session id must be provided
|
|
88
|
* in the query string. <br/><br/>
|
|
89
|
*
|
|
90
|
* <b>REST URL:</b> <code>GET, [context-root]/object/[doc-id]?sessionid=[sessionid] </code><br/>
|
|
91
|
* <b>Returns:</b> data file <br/><br/>
|
|
92
|
* </li>
|
|
93
|
*
|
|
94
|
* <li>
|
|
95
|
* <h3>Query & Authenticated Query:</h3>
|
|
96
|
* Metacat's equivalent is squery action but this function
|
|
97
|
* receives a Earthgrid query document and returns Earthgrid resultset document by transforming those documents
|
|
98
|
* to Metacat's equivalents by the means of Metacat Implementation in Earthgrid library. For authenticated Query service
|
|
99
|
* a session id must be provided in the query string. See Earthgrid (a.k.a. Ecogrid) project for XSD files of
|
|
100
|
* query and resultset documents<br/><br/>
|
|
101
|
*
|
|
102
|
* <b>REST URL:</b> <code>POST, [context-root]/object?sessionid=[sessionid]</code> <br/>
|
|
103
|
* <b>POST Data:</b> Earthgrid query document , Content-type: <code>text/xml</code><br/>
|
|
104
|
* <b>Returns:</b> Earthgrid resultset document<br/><br/>
|
|
105
|
*
|
|
106
|
* </li>
|
|
107
|
* </ul>
|
|
108
|
*
|
|
109
|
* </li>
|
|
110
|
*
|
|
111
|
* <li>
|
|
112
|
* <h3> EarthGrid Authentication Service</h3>
|
|
113
|
* <ul><li>
|
|
114
|
* <h3>Login: </h3>
|
|
115
|
* Receives username and password parameters in POST data and
|
|
116
|
* returns SessionId (in XML format) or failure message and uses MetacatHandler's handleLoginAction function<br/><br/>
|
|
117
|
*
|
|
118
|
* <b>REST URL:</b> <code>POST, [context-root]/session?op=login</code> <br/>
|
|
119
|
* <b>POST Data:</b> username=[username]&password=[password], Content-type: <code>application/x-www-form-urlencoded</code>
|
|
120
|
* <b>Returns:</b> sessionId in XML format<br/><br/>
|
|
121
|
* </li>
|
|
122
|
*
|
|
123
|
* <li>
|
|
124
|
* <h3>Logout: </h3>
|
|
125
|
* Receives session Id parameters in querystring and returns xml message, calls
|
|
126
|
* MetacatHandler's handleLogoutAction function<br/><br/>
|
|
127
|
*
|
|
128
|
* <b>REST URL:</b> <code>GET, [context-root]/session?op=logout&sessionid=[sessionid]</code> <br/>
|
|
129
|
* <b>Returns:</b> message in XML format<br/><br/>
|
|
130
|
* </li>
|
|
131
|
* </ul>
|
|
132
|
*
|
|
133
|
* <li>
|
|
134
|
* <h3>EarthGrid Put Service</h3>
|
|
135
|
*
|
|
136
|
* <ul>
|
|
137
|
* <li><h3>Update/Insert: </h3>
|
|
138
|
* <br/>
|
|
139
|
* <b>REST URL:</b> <code>PUT, [context-root]/object/[doc-id]?op={update|insert}&sessionid=[sessionid]</code> <br/>
|
|
140
|
* <b>POST Data:</b> document object, Content-type: <code>text/xml</code><br/>
|
|
141
|
* <b>Returns:</b> message in XML format<br/><br/>
|
|
142
|
* </li>
|
|
143
|
*
|
|
144
|
* <li><h3>Delete: </h3>
|
|
145
|
* <br/>
|
|
146
|
* <b>REST URL:</b> <code>DELETE, [context-root]/object/[doc-id]?sessionid=[sessionid]</code> <br/>
|
|
147
|
* <b>Returns:</b> message in XML format<br/><br/>
|
|
148
|
* </li>
|
|
149
|
|
|
150
|
* </ul>
|
|
151
|
* </li>
|
|
152
|
*
|
|
153
|
* <li>
|
|
154
|
* <h3>EarthGrid Identifier Service</h3><br/>
|
|
155
|
*
|
|
156
|
* <ul>
|
|
157
|
* <li><h3>isRegistered: </h3> <br/>
|
|
158
|
* <b>REST URL:</b> <code>GET, [context-root]/identifier/[doc-id]?op=isregistered</code> <br/>
|
|
159
|
* <b>Returns:</b> message in XML format<br/><br/>
|
|
160
|
* </li>
|
|
161
|
|
|
162
|
* <li><h3>getAllDocIds:</h3> <br/>
|
|
163
|
* <b>REST URL:</b> <code>GET, [context-root]/identifier?op=getalldocids</code> <br/>
|
|
164
|
* <b>Returns:</b> document id list in XML format<br/><br/>
|
|
165
|
* </li>
|
|
166
|
*
|
|
167
|
* <li><h3>addLSID Function:</h3>
|
|
168
|
* Metacat does not support this function <br/>
|
|
169
|
* <b>REST URL:</b> <code>PUT, [context-root]/identifier/[doc-id]</code> <br/>
|
|
170
|
* <b>Returns:</b> error message in XML format<br/><br/>
|
|
171
|
* </li>
|
|
172
|
*
|
|
173
|
* <li><h3>getNextRevision:</h3> <br/>
|
|
174
|
* <b>REST URL:</b> <code>GET, [context-root]/identifier/[doc-id]?op=getnextrevision</code> <br/>
|
|
175
|
* <b>Returns:</b> message in XML format<br/><br/>
|
|
176
|
* </li>
|
|
177
|
*
|
|
178
|
* <li><h3>getNextObject:</h3> <br/>
|
|
179
|
* <b>REST URL:</b> <code>GET, [context-root]/identifier?op=getnextobject&scope=[scope]</code> <br/>
|
|
180
|
* <b>Returns:</b> message in XML format<br/><br/>
|
|
181
|
* </li>
|
|
182
|
*
|
|
183
|
* </li>
|
|
184
|
* </ul>
|
|
185
|
*
|
|
186
|
*/
|
|
187
|
public class ResourceHandler {
|
|
188
|
|
|
189
|
/**HTTP Verb GET*/
|
|
190
|
public static final byte GET = 1;
|
|
191
|
/**HTTP Verb POST*/
|
|
192
|
public static final byte POST = 2;
|
|
193
|
/**HTTP Verb PUT*/
|
|
194
|
public static final byte PUT = 3;
|
|
195
|
/**HTTP Verb DELETE*/
|
|
196
|
public static final byte DELETE = 4;
|
|
197
|
/**HTTP Verb HEAD*/
|
|
198
|
public static final byte HEAD = 5;
|
|
199
|
|
|
200
|
/*
|
|
201
|
* API Resources
|
|
202
|
*/
|
|
203
|
private static final String RESOURCE_OBJECTS = "object";
|
|
204
|
private static final String RESOURCE_META = "meta";
|
|
205
|
private static final String RESOURCE_SESSION = "session";
|
|
206
|
private static final String RESOURCE_IDENTIFIER = "identifier";
|
|
207
|
private static final String RESOURCE_LOG = "log";
|
|
208
|
private static final String RESOURCE_CHECKSUM = "checksum";
|
|
209
|
private static final String RESOURCE_BASE_URL = "d1";
|
|
210
|
|
|
211
|
/*
|
|
212
|
* API Functions used as URL parameters
|
|
213
|
*/
|
|
214
|
private static final String FUNCTION_KEYWORD = "op";
|
|
215
|
private static final String FUNCTION_NAME_LOGIN = "login";
|
|
216
|
private static final String FUNCTION_NAME_LOGOUT = "logout";
|
|
217
|
private static final String FUNCTION_NAME_SET_ACCESS = "setaccess";
|
|
218
|
private static final String FUNCTION_NAME_ISREGISTERED = "isregistered";
|
|
219
|
private static final String FUNCTION_NAME_GETALLDOCS = "getalldocids";
|
|
220
|
private static final String FUNCTION_NAME_GETNEXTREV = "getnextrevision";
|
|
221
|
private static final String FUNCTION_NAME_GETNEXTOBJ = "getnextobject";
|
|
222
|
private static final String FUNCTION_NAME_INSERT = "insert";
|
|
223
|
private static final String FUNCTION_NAME_UPDATE = "update";
|
|
224
|
private static final String FUNCTION_NAME_GENERATE_MISSING_SYSTEM_METADATA = "generatemissingsystemmetadata";
|
|
225
|
|
|
226
|
private static final DateFormat dateFormat = new SimpleDateFormat("yyyy-MM-dd'T'HH:mm:ss.SSSZ");
|
|
227
|
|
|
228
|
private ServletContext servletContext;
|
|
229
|
private Logger logMetacat;
|
|
230
|
private MetacatHandler handler;
|
|
231
|
private HttpServletRequest request;
|
|
232
|
private HttpServletResponse response;
|
|
233
|
private String username;
|
|
234
|
private String password;
|
|
235
|
private String sessionId;
|
|
236
|
private String[] groupNames;
|
|
237
|
|
|
238
|
private Hashtable<String, String[]> params;
|
|
239
|
|
|
240
|
/**Initializes new instance by setting servlet context,request and response*/
|
|
241
|
public ResourceHandler(ServletContext servletContext,
|
|
242
|
HttpServletRequest request, HttpServletResponse response) {
|
|
243
|
this.servletContext = servletContext;
|
|
244
|
this.request = request;
|
|
245
|
this.response = response;
|
|
246
|
}
|
|
247
|
|
|
248
|
/**
|
|
249
|
* This function is called from REST APU servlet and handles each request to the servlet
|
|
250
|
*
|
|
251
|
* @param httpVerb (GET, POST, PUT or DELETE)
|
|
252
|
*/
|
|
253
|
public void handle(byte httpVerb) {
|
|
254
|
logMetacat = Logger.getLogger(ResourceHandler.class);
|
|
255
|
try {
|
|
256
|
String resource = request.getServletPath();
|
|
257
|
if(resource.endsWith("d1/") || resource.endsWith("d1"))
|
|
258
|
{
|
|
259
|
resource = RESOURCE_BASE_URL;
|
|
260
|
}
|
|
261
|
else
|
|
262
|
{
|
|
263
|
//substring off the /d1/
|
|
264
|
resource = resource.substring(resource.indexOf("d1/") + 3, resource.length());
|
|
265
|
resource = resource.trim();
|
|
266
|
}
|
|
267
|
|
|
268
|
String verb = "";
|
|
269
|
|
|
270
|
System.out.println("handling verb " + httpVerb + " request with resource '" + resource + "'");
|
|
271
|
boolean status = false;
|
|
272
|
loadSessionData();
|
|
273
|
|
|
274
|
if (resource != null) {
|
|
275
|
//resource = request.getServletPath().substring(1);
|
|
276
|
|
|
277
|
params = new Hashtable<String, String[]>();
|
|
278
|
initParams();
|
|
279
|
|
|
280
|
Timer timer = new Timer();
|
|
281
|
handler = new MetacatHandler(timer);
|
|
282
|
|
|
283
|
if(resource.equals(RESOURCE_BASE_URL)) {
|
|
284
|
//node registry response
|
|
285
|
System.out.println("Using resource 'd1' (node registry response)");
|
|
286
|
createNodeResponse();
|
|
287
|
status = true;
|
|
288
|
|
|
289
|
} else if (resource.equals(RESOURCE_SESSION) &&
|
|
290
|
httpVerb == POST &&
|
|
291
|
params.get(FUNCTION_KEYWORD) != null) {
|
|
292
|
System.out.println("Using resource 'session'");
|
|
293
|
//System.out.println("function_keyword: " + params.get(FUNCTION_KEYWORD)[0]);
|
|
294
|
if (params.get(FUNCTION_KEYWORD)[0].equals(FUNCTION_NAME_LOGIN)) {
|
|
295
|
login();
|
|
296
|
status = true;
|
|
297
|
} else if (params.get(FUNCTION_KEYWORD)[0].equals(FUNCTION_NAME_LOGOUT)) {
|
|
298
|
logout();
|
|
299
|
status = true;
|
|
300
|
} else if (params.get(FUNCTION_KEYWORD)[0].equals(FUNCTION_NAME_SET_ACCESS)) {
|
|
301
|
setaccess();
|
|
302
|
status = true;
|
|
303
|
//System.out.println("done setting access");
|
|
304
|
}
|
|
305
|
} else if (resource.equals(RESOURCE_META)) {
|
|
306
|
System.out.println("Using resource 'meta'");
|
|
307
|
if(params != null && params.get(FUNCTION_KEYWORD) != null &&
|
|
308
|
params.get(FUNCTION_KEYWORD)[0].equals(FUNCTION_NAME_GENERATE_MISSING_SYSTEM_METADATA))
|
|
309
|
{ //generate system metadata for any object that is
|
|
310
|
//a) not system metadata itself
|
|
311
|
//b) does not already have a system metadata id in the systemmetadata table
|
|
312
|
//c) not a BIN object (data)
|
|
313
|
//TODO: check if we need this anymore. Might be superceded
|
|
314
|
//by MetacatPopulator
|
|
315
|
generateMissingSystemMetadata();
|
|
316
|
status = true;
|
|
317
|
}
|
|
318
|
else
|
|
319
|
{
|
|
320
|
String objectId = request.getPathInfo();
|
|
321
|
if (objectId != null && objectId.length() > 1)
|
|
322
|
{
|
|
323
|
objectId = request.getPathInfo().substring(1);
|
|
324
|
}
|
|
325
|
getSystemMetadataObject(objectId);
|
|
326
|
status = true;
|
|
327
|
}
|
|
328
|
|
|
329
|
} else if (resource.equals(RESOURCE_OBJECTS)) {
|
|
330
|
System.out.println("Using resource 'object'");
|
|
331
|
logMetacat.debug("D1 Rest: Starting resource processing...");
|
|
332
|
loadSessionData();
|
|
333
|
|
|
334
|
String objectId = request.getPathInfo();
|
|
335
|
if (objectId != null && objectId.length() > 1)
|
|
336
|
{
|
|
337
|
objectId = request.getPathInfo().substring(1);
|
|
338
|
}
|
|
339
|
else
|
|
340
|
{
|
|
341
|
objectId = null;
|
|
342
|
}
|
|
343
|
|
|
344
|
logMetacat.debug("verb:" + httpVerb);
|
|
345
|
|
|
346
|
if (httpVerb == GET) {
|
|
347
|
getObject(objectId);
|
|
348
|
status = true;
|
|
349
|
} else if (httpVerb == POST) {
|
|
350
|
putObject(objectId, FUNCTION_NAME_INSERT);
|
|
351
|
status = true;
|
|
352
|
} else if (httpVerb == PUT) {
|
|
353
|
putObject(objectId, FUNCTION_NAME_UPDATE);
|
|
354
|
status = true;
|
|
355
|
} else if (httpVerb == DELETE) {
|
|
356
|
deleteObject(objectId);
|
|
357
|
status = true;
|
|
358
|
} else if (httpVerb == HEAD) {
|
|
359
|
describeObject(objectId);
|
|
360
|
status = true;
|
|
361
|
}
|
|
362
|
|
|
363
|
|
|
364
|
} else if (resource.equals(RESOURCE_IDENTIFIER)) {
|
|
365
|
System.out.println("Using resource 'identifier'");
|
|
366
|
String identifierId = request.getPathInfo();
|
|
367
|
if (identifierId != null && identifierId.length() > 1)
|
|
368
|
identifierId = request.getPathInfo().substring(1); //trim the slash
|
|
369
|
|
|
370
|
if (httpVerb == GET) {
|
|
371
|
String op = params.get(FUNCTION_KEYWORD)[0];
|
|
372
|
if (op.equals(FUNCTION_NAME_ISREGISTERED)) {
|
|
373
|
isRegistered(identifierId);
|
|
374
|
status = true;
|
|
375
|
} else if (op.equals(FUNCTION_NAME_GETALLDOCS)) {
|
|
376
|
getAllDocIds();
|
|
377
|
status = true;
|
|
378
|
} else if (op.equals(FUNCTION_NAME_GETNEXTREV)) {
|
|
379
|
getNextRevision(identifierId);
|
|
380
|
status = true;
|
|
381
|
} else if (op.equals(FUNCTION_NAME_GETNEXTOBJ)) {
|
|
382
|
getNextObject();
|
|
383
|
status = true;
|
|
384
|
}
|
|
385
|
|
|
386
|
} else if (httpVerb == PUT) {
|
|
387
|
//Earthgrid API > Identifier Service > addLSID Function
|
|
388
|
response.setStatus(501);
|
|
389
|
printError(
|
|
390
|
"This method is not supported by metacat. To "
|
|
391
|
+ "add a new LSID, add a document to metacat.",
|
|
392
|
response);
|
|
393
|
status = true;
|
|
394
|
}
|
|
395
|
|
|
396
|
} else if (resource.equals(RESOURCE_LOG)) {
|
|
397
|
System.out.println("Using resource 'log'");
|
|
398
|
//handle log events
|
|
399
|
if(httpVerb == GET)
|
|
400
|
{
|
|
401
|
getLog();
|
|
402
|
status = true;
|
|
403
|
}
|
|
404
|
else
|
|
405
|
{
|
|
406
|
//change to D1 spec for specifying which http methods are allowed for a resource
|
|
407
|
response.setStatus(501);
|
|
408
|
printError("POST, PUT, DELETE is not supported for logs.", response);
|
|
409
|
status = true;
|
|
410
|
}
|
|
411
|
|
|
412
|
} else if(resource.equals(RESOURCE_CHECKSUM)) {
|
|
413
|
System.out.println("Using resource 'checksum'");
|
|
414
|
//handle checksum requests
|
|
415
|
if(httpVerb == GET)
|
|
416
|
{
|
|
417
|
String guid = null;
|
|
418
|
String checksumAlgorithm = "MD5";
|
|
419
|
|
|
420
|
try
|
|
421
|
{
|
|
422
|
guid = params.get("id")[0];
|
|
423
|
}
|
|
424
|
catch(Exception e)
|
|
425
|
{
|
|
426
|
throw new InvalidRequest("1402", "Incorrect parameters passed to getChecksum");
|
|
427
|
}
|
|
428
|
|
|
429
|
Identifier guidid = new Identifier();
|
|
430
|
guidid.setValue(guid);
|
|
431
|
AuthToken token = new AuthToken(sessionId);
|
|
432
|
try
|
|
433
|
{
|
|
434
|
checksumAlgorithm = params.get("checksumAlgorithm")[0];
|
|
435
|
}
|
|
436
|
catch(Exception e)
|
|
437
|
{
|
|
438
|
//do nothing. default to MD5
|
|
439
|
}
|
|
440
|
System.out.println("getting checksum for object " + guid +
|
|
441
|
" with algorithm " + checksumAlgorithm);
|
|
442
|
try
|
|
443
|
{
|
|
444
|
Checksum c = CrudService.getInstance().getChecksum(token, guidid, checksumAlgorithm);
|
|
445
|
System.out.println("got checksum " + c.getValue());
|
|
446
|
response.setStatus(200);
|
|
447
|
System.out.println("serializing response");
|
|
448
|
serializeServiceType(Checksum.class, c, response.getOutputStream());
|
|
449
|
System.out.println("done serializing response.");
|
|
450
|
}
|
|
451
|
catch(NotAuthorized na)
|
|
452
|
{
|
|
453
|
na.setDetail_code("1400");
|
|
454
|
serializeException(na, response.getOutputStream());
|
|
455
|
}
|
|
456
|
catch(NotFound nf)
|
|
457
|
{
|
|
458
|
nf.setDetail_code("1420");
|
|
459
|
serializeException(nf, response.getOutputStream());
|
|
460
|
}
|
|
461
|
catch(InvalidRequest ir)
|
|
462
|
{
|
|
463
|
ir.setDetail_code("1402");
|
|
464
|
serializeException(ir, response.getOutputStream());
|
|
465
|
}
|
|
466
|
catch(ServiceFailure sf)
|
|
467
|
{
|
|
468
|
sf.setDetail_code("1410");
|
|
469
|
serializeException(sf, response.getOutputStream());
|
|
470
|
}
|
|
471
|
catch(InvalidToken it)
|
|
472
|
{
|
|
473
|
it.setDetail_code("1430");
|
|
474
|
serializeException(it, response.getOutputStream());
|
|
475
|
}
|
|
476
|
status = true;
|
|
477
|
}
|
|
478
|
}
|
|
479
|
|
|
480
|
if (!status)
|
|
481
|
{
|
|
482
|
response.setStatus(400);
|
|
483
|
printError("Incorrect parameters!", response);
|
|
484
|
}
|
|
485
|
} else {
|
|
486
|
response.setStatus(400);
|
|
487
|
printError("Incorrect resource!", response);
|
|
488
|
}
|
|
489
|
} catch (Exception e) {
|
|
490
|
logMetacat.error(e.getMessage());
|
|
491
|
e.printStackTrace();
|
|
492
|
}
|
|
493
|
}
|
|
494
|
|
|
495
|
/**
|
|
496
|
* create the root node registry response.
|
|
497
|
* @throws JiBXException
|
|
498
|
* @throws IOException
|
|
499
|
*/
|
|
500
|
private void createNodeResponse()
|
|
501
|
throws JiBXException, IOException
|
|
502
|
{
|
|
503
|
NodeList nl = new NodeList();
|
|
504
|
Node n = new Node();
|
|
505
|
NodeReference nr = new NodeReference();
|
|
506
|
nr.setValue(request.getRequestURL().toString());
|
|
507
|
n.setIdentifier(nr);
|
|
508
|
n.setBaseURL(request.getRequestURL().toString());
|
|
509
|
n.setDescription("Metacat DataONE Node");
|
|
510
|
n.setName("Metacat");
|
|
511
|
n.setType(NodeType.convert("mn"));
|
|
512
|
|
|
513
|
//create the services
|
|
514
|
Service mnCrud03 = new Service();
|
|
515
|
mnCrud03.setName("Metacat MN_Crud Services Version 0.3");
|
|
516
|
mnCrud03.setVersion("0.3");
|
|
517
|
|
|
518
|
Service mnCrud04 = new Service();
|
|
519
|
mnCrud04.setName("Metacat MN_Crud Services Version 0.4");
|
|
520
|
mnCrud04.setVersion("0.4");
|
|
521
|
|
|
522
|
Service mnCrud09 = new Service();
|
|
523
|
mnCrud09.setName("Metacat MN_Crud Services Version 0.9");
|
|
524
|
mnCrud09.setVersion("0.9");
|
|
525
|
|
|
526
|
Service mnReplication03 = new Service();
|
|
527
|
mnReplication03.setName("Metcat MN_Replication Version 0.3");
|
|
528
|
mnReplication03.setVersion("0.3");
|
|
529
|
|
|
530
|
Service mnHealth04 = new Service();
|
|
531
|
mnHealth04.setName("Metacat MN_Health Version 0.4");
|
|
532
|
mnHealth04.setVersion("0.4");
|
|
533
|
|
|
534
|
Service mnHealth06 = new Service();
|
|
535
|
mnHealth06.setName("Metacat MN_Health Version 0.6");
|
|
536
|
mnHealth06.setVersion("0.6");
|
|
537
|
|
|
538
|
Service mnAuthentication07 = new Service();
|
|
539
|
mnAuthentication07.setName("Metacat MN_Authentication Version 0.7");
|
|
540
|
mnAuthentication07.setVersion("0.7");
|
|
541
|
|
|
542
|
Service mnAuthorization07 = new Service();
|
|
543
|
mnAuthorization07.setName("Metacat MN_Authorization Version 0.7");
|
|
544
|
mnAuthorization07.setVersion("0.7");
|
|
545
|
|
|
546
|
//name, rest, implemented
|
|
547
|
mnCrud03.addMethod(getServiceMethod("MN_crud.get()", "/object/<guid>", true));
|
|
548
|
mnCrud03.addMethod(getServiceMethod("MN_crud.getSystemMetadata()", "/meta/<guid>", true));
|
|
549
|
mnCrud04.addMethod(getServiceMethod("MN_crud.create()", "/object/<guid>", true));
|
|
550
|
mnCrud04.addMethod(getServiceMethod("MN_crud.update()", "/object/<guid>", true));
|
|
551
|
mnCrud09.addMethod(getServiceMethod("MN_crud.delete()", "/object/<guid>", true));
|
|
552
|
mnCrud03.addMethod(getServiceMethod("MN_crud.describe()", "/object/<guid>", true));
|
|
553
|
mnCrud03.addMethod(getServiceMethod("MN_crud.getChecksum()", "/checksum/<guid>", true));
|
|
554
|
mnCrud03.addMethod(getServiceMethod("MN_crud.getLogRecords()", "/log", true));
|
|
555
|
mnReplication03.addMethod(getServiceMethod("MN_replication.listObjects()", "/object", true));
|
|
556
|
mnHealth04.addMethod(getServiceMethod("MN_health.ping()", "/health/ping", false));
|
|
557
|
mnHealth04.addMethod(getServiceMethod("MN_health.getObjectStatistics()", "/monitor/object/<guid>", false));
|
|
558
|
mnHealth06.addMethod(getServiceMethod("MN_health.getStatus()", "/health/status", false));
|
|
559
|
mnAuthentication07.addMethod(getServiceMethod("MN_authentication.login()", "/account/login", false));
|
|
560
|
mnAuthentication07.addMethod(getServiceMethod("MN_authentication.logout()", "/account/logout", false));
|
|
561
|
mnAuthorization07.addMethod(getServiceMethod("MN_authorization.isAuthorized()", "/isAuthorized/<guid>", false));
|
|
562
|
|
|
563
|
Services ss = new Services();
|
|
564
|
ss.addService(mnCrud03);
|
|
565
|
ss.addService(mnCrud04);
|
|
566
|
ss.addService(mnCrud09);
|
|
567
|
ss.addService(mnReplication03);
|
|
568
|
ss.addService(mnHealth04);
|
|
569
|
ss.addService(mnHealth06);
|
|
570
|
ss.addService(mnAuthentication07);
|
|
571
|
ss.addService(mnAuthorization07);
|
|
572
|
n.setServices(ss);
|
|
573
|
nl.addNode(n);
|
|
574
|
serializeServiceType(NodeList.class, nl, response.getOutputStream());
|
|
575
|
}
|
|
576
|
|
|
577
|
/**
|
|
578
|
* MN_crud.describe()
|
|
579
|
* http://mule1.dataone.org/ArchitectureDocs/mn_api_crud.html#MN_crud.describe
|
|
580
|
* @param guid
|
|
581
|
*/
|
|
582
|
private void describeObject(String guid)
|
|
583
|
{
|
|
584
|
Logger logMetacat = Logger.getLogger(ResourceHandler.class);
|
|
585
|
OutputStream out = null;
|
|
586
|
try
|
|
587
|
{
|
|
588
|
out = response.getOutputStream();
|
|
589
|
}
|
|
590
|
catch(Exception e)
|
|
591
|
{
|
|
592
|
logMetacat.error("Error getting output stream in ResourceHandler.describeObject: " + e.getMessage());
|
|
593
|
return;
|
|
594
|
}
|
|
595
|
response.setStatus(200);
|
|
596
|
response.setContentType("text/xml");
|
|
597
|
AuthToken token = new AuthToken(sessionId);
|
|
598
|
CrudService cs = CrudService.getInstance();
|
|
599
|
Identifier id = new Identifier();
|
|
600
|
id.setValue(guid);
|
|
601
|
try
|
|
602
|
{
|
|
603
|
DescribeResponse dr = cs.describe(token, id);
|
|
604
|
DateFormat dateFormat = new SimpleDateFormat("yyyy-MM-dd'T'hh:mm:ss.SZ");
|
|
605
|
response.addHeader("guid", guid);
|
|
606
|
response.addHeader("checksum", dr.getDataONE_Checksum().getValue());
|
|
607
|
response.addHeader("checksum_algorithm", dr.getDataONE_Checksum().getAlgorithm().name());
|
|
608
|
response.addHeader("content_length", dr.getContent_Length() + "");
|
|
609
|
response.addHeader("last_modified", dateFormat.format(dr.getLast_Modified()));
|
|
610
|
response.addHeader("format", dr.getDataONE_ObjectFormat().toString());
|
|
611
|
}
|
|
612
|
catch(InvalidRequest ir)
|
|
613
|
{
|
|
614
|
serializeException(ir, out);
|
|
615
|
}
|
|
616
|
catch(NotImplemented ni)
|
|
617
|
{
|
|
618
|
serializeException(ni, out);
|
|
619
|
}
|
|
620
|
catch(NotAuthorized na)
|
|
621
|
{
|
|
622
|
serializeException(na, out);
|
|
623
|
}
|
|
624
|
catch(ServiceFailure sf)
|
|
625
|
{
|
|
626
|
serializeException(sf, out);
|
|
627
|
}
|
|
628
|
catch(NotFound nf)
|
|
629
|
{
|
|
630
|
serializeException(nf, out);
|
|
631
|
}
|
|
632
|
catch(InvalidToken it)
|
|
633
|
{
|
|
634
|
serializeException(it, out);
|
|
635
|
}
|
|
636
|
}
|
|
637
|
|
|
638
|
/**
|
|
639
|
* get the logs from the CrudService based on passed params. Available
|
|
640
|
* params are token, fromDate, toDate, event. See
|
|
641
|
* http://mule1.dataone.org/ArchitectureDocs/mn_api_crud.html#MN_crud.getLogRecords
|
|
642
|
* for more info
|
|
643
|
*/
|
|
644
|
private void getLog()
|
|
645
|
{
|
|
646
|
OutputStream out = null;
|
|
647
|
try
|
|
648
|
{
|
|
649
|
out = response.getOutputStream();
|
|
650
|
response.setStatus(200);
|
|
651
|
response.setContentType("text/xml");
|
|
652
|
AuthToken token = new AuthToken(sessionId);
|
|
653
|
String fromDateS = params.get("fromDate")[0];
|
|
654
|
System.out.println("param fromDateS: " + fromDateS);
|
|
655
|
Date fromDate = null;
|
|
656
|
String toDateS = params.get("toDate")[0];
|
|
657
|
System.out.println("param toDateS: " + toDateS);
|
|
658
|
Date toDate = null;
|
|
659
|
String eventS = params.get("event")[0];
|
|
660
|
Event event = null;
|
|
661
|
if(fromDateS != null)
|
|
662
|
{
|
|
663
|
//fromDate = dateFormat.parse(fromDateS);
|
|
664
|
fromDate = parseDateAndConvertToGMT(fromDateS);
|
|
665
|
}
|
|
666
|
if(toDateS != null)
|
|
667
|
{
|
|
668
|
//toDate = dateFormat.parse(toDateS);
|
|
669
|
toDate = parseDateAndConvertToGMT(toDateS);
|
|
670
|
}
|
|
671
|
if(eventS != null)
|
|
672
|
{
|
|
673
|
event = Event.convert(eventS);
|
|
674
|
}
|
|
675
|
System.out.println("fromDate: " + fromDate + " toDate: " + toDate);
|
|
676
|
|
|
677
|
System.out.println("calling crudservice.getLogRecords");
|
|
678
|
Log log = CrudService.getInstance().getLogRecords(token, fromDate, toDate, event);
|
|
679
|
serializeServiceType(Log.class, log, out);
|
|
680
|
}
|
|
681
|
catch(Exception e)
|
|
682
|
{
|
|
683
|
String msg = "Could not get logs from CrudService: " + e.getMessage();
|
|
684
|
response.setStatus(500);
|
|
685
|
ServiceFailure sf = new ServiceFailure("1490", msg);
|
|
686
|
logMetacat.error(msg);
|
|
687
|
e.printStackTrace();
|
|
688
|
serializeException(sf, out);
|
|
689
|
}
|
|
690
|
}
|
|
691
|
|
|
692
|
/**
|
|
693
|
* copies request parameters to a hashtable which is given as argument to native metacathandler functions
|
|
694
|
*/
|
|
695
|
private void initParams() {
|
|
696
|
|
|
697
|
String name = null;
|
|
698
|
String[] value = null;
|
|
699
|
Enumeration paramlist = request.getParameterNames();
|
|
700
|
while (paramlist.hasMoreElements()) {
|
|
701
|
name = (String) paramlist.nextElement();
|
|
702
|
value = request.getParameterValues(name);
|
|
703
|
params.put(name, value);
|
|
704
|
}
|
|
705
|
}
|
|
706
|
|
|
707
|
/**
|
|
708
|
*
|
|
709
|
* Load user details of metacat session from the request
|
|
710
|
*
|
|
711
|
*/
|
|
712
|
private void loadSessionData()
|
|
713
|
throws Exception
|
|
714
|
{
|
|
715
|
SessionData sessionData = RequestUtil.getSessionData(request);
|
|
716
|
try
|
|
717
|
{
|
|
718
|
username = null;
|
|
719
|
password = null;
|
|
720
|
groupNames = null;
|
|
721
|
sessionId = null;
|
|
722
|
|
|
723
|
boolean validSession = false;
|
|
724
|
SessionService ss = SessionService.getInstance();
|
|
725
|
System.out.println("sessionData: " + sessionData);
|
|
726
|
if(sessionData == null)
|
|
727
|
{
|
|
728
|
username = "public";
|
|
729
|
sessionId = "0";
|
|
730
|
System.out.println("sessiondata is null. Creating a public session.");
|
|
731
|
return;
|
|
732
|
}
|
|
733
|
|
|
734
|
System.out.println("username: " + sessionData.getUserName());
|
|
735
|
System.out.println("sessionid: " + sessionData.getId());
|
|
736
|
//validate the session
|
|
737
|
if(ss.isSessionRegistered(sessionData.getId()) &&
|
|
738
|
!(sessionData.getUserName().equals("public") || sessionData.getId().equals("0")))
|
|
739
|
{
|
|
740
|
validSession = true;
|
|
741
|
}
|
|
742
|
|
|
743
|
if(validSession)
|
|
744
|
{
|
|
745
|
//if the session is valid, set these variables
|
|
746
|
username = sessionData.getUserName();
|
|
747
|
password = sessionData.getPassword();
|
|
748
|
groupNames = sessionData.getGroupNames();
|
|
749
|
sessionId = sessionData.getId();
|
|
750
|
System.out.println("setting sessionid to " + sessionId);
|
|
751
|
System.out.println("username: " + username);
|
|
752
|
}
|
|
753
|
|
|
754
|
//if the session is not valid or the username is null, set
|
|
755
|
//username to public
|
|
756
|
if (username == null)
|
|
757
|
{
|
|
758
|
System.out.println("setting username to public.");
|
|
759
|
username = "public";
|
|
760
|
}
|
|
761
|
}
|
|
762
|
catch(Exception e)
|
|
763
|
{
|
|
764
|
e.printStackTrace();
|
|
765
|
throw new Exception("Could not load the session data: " + e.getMessage());
|
|
766
|
}
|
|
767
|
}
|
|
768
|
|
|
769
|
/**
|
|
770
|
* generate missing system metadata for any science metadata objects
|
|
771
|
* that don't already have it. https://trac.dataone.org/ticket/591
|
|
772
|
*
|
|
773
|
* called with POST meta/?op=generatemissingsystemmetadata
|
|
774
|
*/
|
|
775
|
private void generateMissingSystemMetadata()
|
|
776
|
{
|
|
777
|
AuthToken token = new AuthToken(sessionId);
|
|
778
|
CrudService.getInstance().generateMissingSystemMetadata(token);
|
|
779
|
}
|
|
780
|
|
|
781
|
/**
|
|
782
|
* Earthgrid API > Identifier Service > isRegistered Function :
|
|
783
|
* calls MetacatHandler > handleIdIsRegisteredAction
|
|
784
|
* @param guid
|
|
785
|
* @throws IOException
|
|
786
|
*/
|
|
787
|
private void isRegistered(String guid) throws IOException
|
|
788
|
{
|
|
789
|
|
|
790
|
// Look up the localId for this guid
|
|
791
|
IdentifierManager im = IdentifierManager.getInstance();
|
|
792
|
String localId = "";
|
|
793
|
try {
|
|
794
|
localId = im.getLocalId(guid);
|
|
795
|
} catch (McdbDocNotFoundException e) {
|
|
796
|
// TODO: Need to return the proper DataONE exception
|
|
797
|
}
|
|
798
|
|
|
799
|
params.put("docid", new String[] { localId });
|
|
800
|
PrintWriter out = response.getWriter();
|
|
801
|
response.setStatus(200);
|
|
802
|
response.setContentType("text/xml");
|
|
803
|
handler.handleIdIsRegisteredAction(out, params, response);
|
|
804
|
out.close();
|
|
805
|
}
|
|
806
|
|
|
807
|
/**
|
|
808
|
* Earthgrid API > Identifier Service > getAllDocIds Function :
|
|
809
|
* calls MetacatHandler > handleGetAllDocidsAction
|
|
810
|
* @throws IOException
|
|
811
|
*/
|
|
812
|
private void getAllDocIds() throws IOException {
|
|
813
|
PrintWriter out = response.getWriter();
|
|
814
|
response.setStatus(200);
|
|
815
|
response.setContentType("text/xml");
|
|
816
|
handler.handleGetAllDocidsAction(out, params, response);
|
|
817
|
out.close();
|
|
818
|
}
|
|
819
|
|
|
820
|
/**
|
|
821
|
* Earthgrid API > Identifier Service > getNextRevision Function :
|
|
822
|
* calls MetacatHandler > handleGetRevisionAndDocTypeAction
|
|
823
|
* @param guid
|
|
824
|
* @throws IOException
|
|
825
|
*/
|
|
826
|
private void getNextRevision(String guid) throws IOException
|
|
827
|
{
|
|
828
|
params.put("docid", new String[] { guid });
|
|
829
|
PrintWriter out = response.getWriter();
|
|
830
|
response.setStatus(200);
|
|
831
|
response.setContentType("text/xml");
|
|
832
|
//handler.handleGetRevisionAndDocTypeAction(out, params);
|
|
833
|
|
|
834
|
try {
|
|
835
|
// Make sure there is a docid
|
|
836
|
if (guid == null || guid.equals("")) {
|
|
837
|
throw new Exception("User didn't specify docid!");
|
|
838
|
}
|
|
839
|
|
|
840
|
// Look up the localId for this guid
|
|
841
|
IdentifierManager im = IdentifierManager.getInstance();
|
|
842
|
String localId = "";
|
|
843
|
try {
|
|
844
|
localId = im.getLocalId(guid);
|
|
845
|
} catch (McdbDocNotFoundException e) {
|
|
846
|
// TODO: Need to return the proper DataONE exception
|
|
847
|
}
|
|
848
|
|
|
849
|
// Create a DBUtil object
|
|
850
|
DBUtil dbutil = new DBUtil();
|
|
851
|
// Get a rev and doctype
|
|
852
|
String revAndDocType = dbutil
|
|
853
|
.getCurrentRevisionAndDocTypeForGivenDocument(localId);
|
|
854
|
int revision = Integer.parseInt(revAndDocType.split(";")[0]) + 1;
|
|
855
|
|
|
856
|
out.println("<?xml version=\"1.0\"?>");
|
|
857
|
out.print("<next-revision>");
|
|
858
|
out.print(revision);
|
|
859
|
out.print("</next-revision>");
|
|
860
|
|
|
861
|
} catch (Exception e) {
|
|
862
|
// Handle exception
|
|
863
|
response.setStatus(500);
|
|
864
|
out.println("<?xml version=\"1.0\"?>");
|
|
865
|
out.println("<error>");
|
|
866
|
out.println(e.getMessage());
|
|
867
|
out.println("</error>");
|
|
868
|
}
|
|
869
|
|
|
870
|
out.close();
|
|
871
|
}
|
|
872
|
|
|
873
|
/**
|
|
874
|
* Earthgrid API > Identifier Service > getNextObject Function :
|
|
875
|
* calls MetacatHandler > handleGetMaxDocidAction
|
|
876
|
* @throws IOException
|
|
877
|
*/
|
|
878
|
private void getNextObject() throws IOException {
|
|
879
|
PrintWriter out = response.getWriter();
|
|
880
|
response.setStatus(200);
|
|
881
|
response.setContentType("text/xml");
|
|
882
|
handler.handleGetMaxDocidAction(out, params, response);
|
|
883
|
out.close();
|
|
884
|
}
|
|
885
|
|
|
886
|
/**
|
|
887
|
* Implements REST version of DataONE CRUD API --> get
|
|
888
|
* @param guid ID of data object to be read
|
|
889
|
*/
|
|
890
|
private void getObject(String guid) {
|
|
891
|
CrudService cs = CrudService.getInstance();
|
|
892
|
cs.setParamsFromRequest(request);
|
|
893
|
AuthToken token = new AuthToken(sessionId);
|
|
894
|
OutputStream out = null;
|
|
895
|
try {
|
|
896
|
out = response.getOutputStream();
|
|
897
|
response.setStatus(200);
|
|
898
|
response.setContentType("text/xml");
|
|
899
|
if(guid != null)
|
|
900
|
{ //get a specific document
|
|
901
|
Identifier id = new Identifier();
|
|
902
|
id.setValue(guid);
|
|
903
|
try
|
|
904
|
{
|
|
905
|
if(token == null)
|
|
906
|
{
|
|
907
|
token = new AuthToken("Public");
|
|
908
|
}
|
|
909
|
InputStream data = cs.get(token, id);
|
|
910
|
IOUtils.copyLarge(data, response.getOutputStream());
|
|
911
|
}
|
|
912
|
catch(InvalidToken it)
|
|
913
|
{
|
|
914
|
response.setStatus(500);
|
|
915
|
serializeException(it, out);
|
|
916
|
}
|
|
917
|
catch(ServiceFailure sf)
|
|
918
|
{
|
|
919
|
response.setStatus(500);
|
|
920
|
serializeException(sf, out);
|
|
921
|
}
|
|
922
|
catch(NotAuthorized na)
|
|
923
|
{
|
|
924
|
response.setStatus(500);
|
|
925
|
serializeException(na, out);
|
|
926
|
}
|
|
927
|
catch(NotFound nf)
|
|
928
|
{
|
|
929
|
response.setStatus(500);
|
|
930
|
serializeException(nf, out);
|
|
931
|
}
|
|
932
|
catch(NotImplemented ni)
|
|
933
|
{
|
|
934
|
response.setStatus(500);
|
|
935
|
serializeException(ni, out);
|
|
936
|
}
|
|
937
|
catch(Exception e)
|
|
938
|
{
|
|
939
|
response.setStatus(500);
|
|
940
|
System.out.println("Error with Crud.get(). " +
|
|
941
|
"If this is an 'Exception producing data' error, " +
|
|
942
|
"go to CrudService.get() for better debugging. " +
|
|
943
|
"Here's the error: " + e.getMessage());
|
|
944
|
e.printStackTrace();
|
|
945
|
ServiceFailure sf = new ServiceFailure("1030",
|
|
946
|
"IO Error in ResourceHandler.getObject: " + e.getMessage());
|
|
947
|
serializeException(sf, out);
|
|
948
|
}
|
|
949
|
}
|
|
950
|
else
|
|
951
|
{ //call listObjects with specified params
|
|
952
|
Date startTime = null;
|
|
953
|
Date endTime = null;
|
|
954
|
ObjectFormat objectFormat = null;
|
|
955
|
boolean replicaStatus = false;
|
|
956
|
int start = 0;
|
|
957
|
//TODO: make the max count into a const
|
|
958
|
int count = 1000;
|
|
959
|
Enumeration paramlist = request.getParameterNames();
|
|
960
|
while (paramlist.hasMoreElements())
|
|
961
|
{ //parse the params and make the crud call
|
|
962
|
String name = (String) paramlist.nextElement();
|
|
963
|
String[] value = (String[])request.getParameterValues(name);
|
|
964
|
/*for(int i=0; i<value.length; i++)
|
|
965
|
{
|
|
966
|
System.out.println("name: " + name + " value: " + value[i]);
|
|
967
|
}*/
|
|
968
|
if(name.equals("startTime") && value != null)
|
|
969
|
{
|
|
970
|
try
|
|
971
|
{
|
|
972
|
//startTime = dateFormat.parse(value[0]);
|
|
973
|
startTime = parseDateAndConvertToGMT(value[0]);
|
|
974
|
}
|
|
975
|
catch(Exception e)
|
|
976
|
{ //if we can't parse it, just don't use the startTime param
|
|
977
|
System.out.println("Could not parse startTime: " + value[0]);
|
|
978
|
startTime = null;
|
|
979
|
}
|
|
980
|
}
|
|
981
|
else if(name.equals("endTime") && value != null)
|
|
982
|
{
|
|
983
|
try
|
|
984
|
{
|
|
985
|
//endTime = dateFormat.parse(value[0]);
|
|
986
|
endTime = parseDateAndConvertToGMT(value[0]);
|
|
987
|
}
|
|
988
|
catch(Exception e)
|
|
989
|
{ //if we can't parse it, just don't use the endTime param
|
|
990
|
System.out.println("Could not parse endTime: " + value[0]);
|
|
991
|
endTime = null;
|
|
992
|
}
|
|
993
|
}
|
|
994
|
else if(name.equals("objectFormat") && value != null)
|
|
995
|
{
|
|
996
|
objectFormat = ObjectFormat.convert(value[0]);
|
|
997
|
}
|
|
998
|
else if(name.equals("replicaStatus") && value != null)
|
|
999
|
{
|
|
1000
|
if(value != null &&
|
|
1001
|
value.length > 0 &&
|
|
1002
|
(value[0].equals("true") || value[0].equals("TRUE") || value[0].equals("YES")))
|
|
1003
|
{
|
|
1004
|
replicaStatus = true;
|
|
1005
|
}
|
|
1006
|
}
|
|
1007
|
else if(name.equals("start") && value != null)
|
|
1008
|
{
|
|
1009
|
start = new Integer(value[0]).intValue();
|
|
1010
|
}
|
|
1011
|
else if(name.equals("count") && value != null)
|
|
1012
|
{
|
|
1013
|
count = new Integer(value[0]).intValue();
|
|
1014
|
}
|
|
1015
|
}
|
|
1016
|
//make the crud call
|
|
1017
|
System.out.println("token: " + token + " startTime: " + startTime +
|
|
1018
|
" endtime: " + endTime + " objectFormat: " +
|
|
1019
|
objectFormat + " replicaStatus: " + replicaStatus +
|
|
1020
|
" start: " + start + " count: " + count);
|
|
1021
|
|
|
1022
|
ObjectList ol = cs.listObjects(token, startTime, endTime,
|
|
1023
|
objectFormat, replicaStatus, start, count);
|
|
1024
|
|
|
1025
|
StringReader sr = new StringReader(ol.toString());
|
|
1026
|
out = response.getOutputStream();
|
|
1027
|
response.setStatus(200);
|
|
1028
|
response.setContentType("text/xml");
|
|
1029
|
// Serialize and write it to the output stream
|
|
1030
|
|
|
1031
|
try {
|
|
1032
|
serializeServiceType(ObjectList.class, ol, out);
|
|
1033
|
} catch (JiBXException e) {
|
|
1034
|
throw new ServiceFailure("1190", "Failed to serialize ObjectList: " + e.getMessage());
|
|
1035
|
}
|
|
1036
|
}
|
|
1037
|
} catch (BaseException e) {
|
|
1038
|
response.setStatus(500);
|
|
1039
|
serializeException(e, out);
|
|
1040
|
} catch (IOException e) {
|
|
1041
|
e.printStackTrace();
|
|
1042
|
response.setStatus(500);
|
|
1043
|
ServiceFailure sf = new ServiceFailure("1030",
|
|
1044
|
"IO Error in ResourceHandler.getObject: " + e.getMessage());
|
|
1045
|
serializeException(sf, out);
|
|
1046
|
} catch(NumberFormatException ne) {
|
|
1047
|
response.setStatus(500);
|
|
1048
|
InvalidRequest ir = new InvalidRequest("1030", "Invalid format for parameter: " + ne.getMessage());
|
|
1049
|
serializeException(ir, out);
|
|
1050
|
} catch (Exception e) {
|
|
1051
|
e.printStackTrace();
|
|
1052
|
response.setStatus(500);
|
|
1053
|
ServiceFailure sf = new ServiceFailure("1030",
|
|
1054
|
"Exception " + e.getClass().getName() + " raised while handling listObjects request: " +
|
|
1055
|
e.getMessage());
|
|
1056
|
serializeException(sf, out);
|
|
1057
|
}
|
|
1058
|
}
|
|
1059
|
|
|
1060
|
/**
|
|
1061
|
* parse a date and return it in GMT if it ends with a 'Z'
|
|
1062
|
* @param date
|
|
1063
|
* @return
|
|
1064
|
* @throws ParseException
|
|
1065
|
*/
|
|
1066
|
private Date parseDateAndConvertToGMT(String date) throws ParseException
|
|
1067
|
{
|
|
1068
|
try
|
|
1069
|
{ //the format we want
|
|
1070
|
return dateFormat.parse(date);
|
|
1071
|
}
|
|
1072
|
catch(java.text.ParseException pe)
|
|
1073
|
{ //try another legacy format
|
|
1074
|
DateFormat dateFormat2 = new SimpleDateFormat("yyyy-MM-dd'T'hh:mm:ss'Z'");
|
|
1075
|
dateFormat2.setTimeZone(TimeZone.getTimeZone("GMT-0"));
|
|
1076
|
return dateFormat2.parse(date);
|
|
1077
|
}
|
|
1078
|
}
|
|
1079
|
|
|
1080
|
/**
|
|
1081
|
* Implements REST version of DataONE CRUD API --> getSystemMetadata
|
|
1082
|
* @param guid ID of data object to be read
|
|
1083
|
*/
|
|
1084
|
private void getSystemMetadataObject(String guid) {
|
|
1085
|
CrudService cs = CrudService.getInstance();
|
|
1086
|
cs.setParamsFromRequest(request);
|
|
1087
|
AuthToken token = new AuthToken(sessionId);
|
|
1088
|
OutputStream out = null;
|
|
1089
|
try {
|
|
1090
|
response.setContentType("text/xml");
|
|
1091
|
response.setStatus(200);
|
|
1092
|
out = response.getOutputStream();
|
|
1093
|
Identifier id = new Identifier();
|
|
1094
|
id.setValue(guid);
|
|
1095
|
SystemMetadata sysmeta = cs.getSystemMetadata(token, id);
|
|
1096
|
|
|
1097
|
// Serialize and write it to the output stream
|
|
1098
|
try {
|
|
1099
|
//TODO: look at the efficiency of this method. The system metadata
|
|
1100
|
//is read from metacat (in CrudService) as xml, then serialized
|
|
1101
|
//to a SystemMetadat object, then returned here, then serizlized
|
|
1102
|
//back to XML to be sent to the response.
|
|
1103
|
serializeServiceType(SystemMetadata.class, sysmeta, out);
|
|
1104
|
} catch (JiBXException e) {
|
|
1105
|
throw new ServiceFailure("1190", "Failed to serialize SystemMetadata: " + e.getMessage());
|
|
1106
|
}
|
|
1107
|
} catch (BaseException e) {
|
|
1108
|
response.setStatus(500);
|
|
1109
|
serializeException(e, out);
|
|
1110
|
} catch (IOException e) {
|
|
1111
|
response.setStatus(500);
|
|
1112
|
ServiceFailure sf = new ServiceFailure("1030",
|
|
1113
|
"Error in ResourceHandler.getSystemMetadataObject: " + e.getMessage());
|
|
1114
|
serializeException(sf, out);
|
|
1115
|
} finally {
|
|
1116
|
IOUtils.closeQuietly(out);
|
|
1117
|
}
|
|
1118
|
}
|
|
1119
|
|
|
1120
|
/**
|
|
1121
|
* serialize an object of type to out
|
|
1122
|
* @param type the class of the object to serialize (i.e. SystemMetadata.class)
|
|
1123
|
* @param object the object to serialize
|
|
1124
|
* @param out the stream to serialize it to
|
|
1125
|
* @throws JiBXException
|
|
1126
|
*/
|
|
1127
|
private void serializeServiceType(Class type, Object object, OutputStream out)
|
|
1128
|
throws JiBXException
|
|
1129
|
{
|
|
1130
|
IBindingFactory bfact = BindingDirectory.getFactory(type);
|
|
1131
|
IMarshallingContext mctx = bfact.createMarshallingContext();
|
|
1132
|
mctx.marshalDocument(object, "UTF-8", null, out);
|
|
1133
|
}
|
|
1134
|
|
|
1135
|
/**
|
|
1136
|
* deserialize an object of type from is
|
|
1137
|
* @param type the class of the object to serialize (i.e. SystemMetadata.class)
|
|
1138
|
* @param is the stream to deserialize from
|
|
1139
|
* @throws JiBXException
|
|
1140
|
*/
|
|
1141
|
private Object deserializeServiceType(Class type, InputStream is)
|
|
1142
|
throws JiBXException
|
|
1143
|
{
|
|
1144
|
IBindingFactory bfact = BindingDirectory.getFactory(type);
|
|
1145
|
IUnmarshallingContext uctx = bfact.createUnmarshallingContext();
|
|
1146
|
Object o = (Object) uctx.unmarshalDocument(is, null);
|
|
1147
|
return o;
|
|
1148
|
}
|
|
1149
|
|
|
1150
|
/**
|
|
1151
|
* Earthgrid API > Query Service > Query Function : translates ecogrid query document to metacat query
|
|
1152
|
* then calls DBQuery > createResultDocument function and then again translate resultset to ecogrid resultset
|
|
1153
|
*
|
|
1154
|
* NOTE:
|
|
1155
|
* This is the only method that uses EcoGrid classes for its implementation.
|
|
1156
|
* It does so because it takes an EcoGrid Query as input, and outputs an
|
|
1157
|
* EcoGrid ResultSet document. These documents are parsed by the auto-generated
|
|
1158
|
* EcoGrid classes from axis, and so we link to them here rather than re-inventing them.
|
|
1159
|
* This creates a circular dependency, because the Metacat classes are needed
|
|
1160
|
* to build the EcoGrid implementation, and the EcoGrid jars are needed to build this query()
|
|
1161
|
* method. This circularity could be resolved by moving the EcoGrid classes
|
|
1162
|
* to Metacat directly. As we transition away from EcoGrid SOAP methods in
|
|
1163
|
* favor of these REST interfaces, this circular dependency can be eliminated.
|
|
1164
|
*
|
|
1165
|
* @throws Exception
|
|
1166
|
*/
|
|
1167
|
private void query() throws Exception {
|
|
1168
|
/* This block commented out because of the EcoGrid circular dependency.
|
|
1169
|
* For now, query will not be supported until the circularity can be
|
|
1170
|
* resolved, probably by moving the ecogrid query syntax transformers
|
|
1171
|
* directly into the Metacat codebase. MBJ 2010-02-03
|
|
1172
|
|
|
1173
|
try {
|
|
1174
|
EcogridQueryParser parser = new EcogridQueryParser(request
|
|
1175
|
.getReader());
|
|
1176
|
parser.parseXML();
|
|
1177
|
QueryType queryType = parser.getEcogridQuery();
|
|
1178
|
EcogridJavaToMetacatJavaQueryTransformer queryTransformer =
|
|
1179
|
new EcogridJavaToMetacatJavaQueryTransformer();
|
|
1180
|
QuerySpecification metacatQuery = queryTransformer
|
|
1181
|
.transform(queryType);
|
|
1182
|
|
|
1183
|
DBQuery metacat = new DBQuery();
|
|
1184
|
|
|
1185
|
boolean useXMLIndex = (new Boolean(PropertyService
|
|
1186
|
.getProperty("database.usexmlindex"))).booleanValue();
|
|
1187
|
String xmlquery = "query"; // we don't care the query in resultset,
|
|
1188
|
// the query can be anything
|
|
1189
|
PrintWriter out = null; // we don't want metacat result, so set out null
|
|
1190
|
|
|
1191
|
// parameter: queryspecification, user, group, usingIndexOrNot
|
|
1192
|
StringBuffer result = metacat.createResultDocument(xmlquery,
|
|
1193
|
metacatQuery, out, username, groupNames, useXMLIndex);
|
|
1194
|
|
|
1195
|
// create result set transfer
|
|
1196
|
String saxparser = PropertyService.getProperty("xml.saxparser");
|
|
1197
|
MetacatResultsetParser metacatResultsetParser = new MetacatResultsetParser(
|
|
1198
|
new StringReader(result.toString()), saxparser, queryType
|
|
1199
|
.getNamespace().get_value());
|
|
1200
|
ResultsetType records = metacatResultsetParser.getEcogridResult();
|
|
1201
|
|
|
1202
|
System.out
|
|
1203
|
.println(EcogridResultsetTransformer.toXMLString(records));
|
|
1204
|
response.setContentType("text/xml");
|
|
1205
|
out = response.getWriter();
|
|
1206
|
out.print(EcogridResultsetTransformer.toXMLString(records));
|
|
1207
|
|
|
1208
|
} catch (Exception e) {
|
|
1209
|
e.printStackTrace();
|
|
1210
|
}*/
|
|
1211
|
response.setContentType("text/xml");
|
|
1212
|
response.setStatus(501);
|
|
1213
|
PrintWriter out = response.getWriter();
|
|
1214
|
out.print("<error>Query operation not yet supported by Metacat.</error>");
|
|
1215
|
out.close();
|
|
1216
|
}
|
|
1217
|
|
|
1218
|
private String streamToString(InputStream is)
|
|
1219
|
throws IOException
|
|
1220
|
{
|
|
1221
|
return IOUtil.toString(is);
|
|
1222
|
}
|
|
1223
|
|
|
1224
|
private InputStream stringToStream(String s)
|
|
1225
|
throws IOException
|
|
1226
|
{
|
|
1227
|
ByteArrayInputStream bais = new ByteArrayInputStream(s.getBytes());
|
|
1228
|
return bais;
|
|
1229
|
}
|
|
1230
|
|
|
1231
|
/**
|
|
1232
|
* process a mime multipart message
|
|
1233
|
* @param is
|
|
1234
|
* @return
|
|
1235
|
*/
|
|
1236
|
/*private Hashtable processMMP(InputStream is)
|
|
1237
|
throws IOException
|
|
1238
|
{
|
|
1239
|
//TODO: verify that this is how the RFC for MMP should work
|
|
1240
|
//SORTAHACK: Since mmp seems to have a bug where large object parts get truncated,
|
|
1241
|
//parse the stream here. This has the disavantage of putting the
|
|
1242
|
//stream into memory.
|
|
1243
|
InputStream object = null;
|
|
1244
|
InputStream sysmeta = null;
|
|
1245
|
String s = IOUtils.toString(is);
|
|
1246
|
System.out.println("mime: " + s);
|
|
1247
|
//figure out what the boundary marker is
|
|
1248
|
String searchString = "boundary=";
|
|
1249
|
int searchStringIndex = s.indexOf(searchString);
|
|
1250
|
String boundary = s.substring(searchStringIndex + searchString.length() + 1,
|
|
1251
|
s.indexOf("\"", searchStringIndex + searchString.length() + 1));
|
|
1252
|
boundary = "--" + boundary;
|
|
1253
|
//System.out.println("boundary is " + boundary);
|
|
1254
|
|
|
1255
|
//find the system metadata
|
|
1256
|
searchString = "Content-Disposition: attachment; filename=systemmetadata";
|
|
1257
|
searchStringIndex = s.indexOf(searchString);
|
|
1258
|
String sm = s.substring(searchStringIndex +
|
|
1259
|
searchString.length() + 2,
|
|
1260
|
s.indexOf(boundary, searchStringIndex));
|
|
1261
|
sysmeta = new ByteArrayInputStream(sm.getBytes());
|
|
1262
|
|
|
1263
|
//find the object
|
|
1264
|
searchString = "Content-Disposition: attachment; filename=object";
|
|
1265
|
searchStringIndex = s.indexOf(searchString);
|
|
1266
|
String o = s.substring(searchStringIndex +
|
|
1267
|
searchString.length() + 2,
|
|
1268
|
s.indexOf(boundary, searchStringIndex));
|
|
1269
|
object = new ByteArrayInputStream(o.getBytes());
|
|
1270
|
|
|
1271
|
Hashtable h = new Hashtable();
|
|
1272
|
h.put("object", object);
|
|
1273
|
h.put("systemmetadata", sysmeta);
|
|
1274
|
|
|
1275
|
//System.out.println("o: \"" + o + "\"");
|
|
1276
|
//System.out.println("sm: \"" + sm + "\"");
|
|
1277
|
return h;
|
|
1278
|
}
|
|
1279
|
*/
|
|
1280
|
|
|
1281
|
protected static String[] findBoundaryString(InputStream is)
|
|
1282
|
throws IOException
|
|
1283
|
{
|
|
1284
|
String[] endResult = new String[2];
|
|
1285
|
String boundary = "";
|
|
1286
|
String searchString = "boundary=";
|
|
1287
|
boolean doneWithCurrentArray = false;
|
|
1288
|
byte[] b = new byte[1024];
|
|
1289
|
int numbytes = is.read(b, 0, 1024);
|
|
1290
|
while(numbytes != -1)
|
|
1291
|
{
|
|
1292
|
String s = new String(b, 0, numbytes);
|
|
1293
|
|
|
1294
|
int[] result = StreamUtil.lookForMatch(searchString, s);
|
|
1295
|
int searchStringIndex = s.indexOf(searchString);
|
|
1296
|
if(s.indexOf("\"", searchStringIndex + searchString.length() + 1) == -1)
|
|
1297
|
{ //the end of the boundary is in the next byte array
|
|
1298
|
boundary = s.substring(searchStringIndex + searchString.length() + 1, s.length());
|
|
1299
|
}
|
|
1300
|
else if(!boundary.startsWith("--"))
|
|
1301
|
{ //we can read the whole boundary from this byte array
|
|
1302
|
boundary = s.substring(searchStringIndex + searchString.length() + 1,
|
|
1303
|
s.indexOf("\"", searchStringIndex + searchString.length() + 1));
|
|
1304
|
boundary = "--" + boundary;
|
|
1305
|
endResult[0] = boundary;
|
|
1306
|
endResult[1] = s.substring(s.indexOf("\"", searchStringIndex + searchString.length() + 1) + 1,
|
|
1307
|
s.length());
|
|
1308
|
break;
|
|
1309
|
}
|
|
1310
|
else
|
|
1311
|
{ //we're now reading the 2nd byte array to get the rest of the boundary
|
|
1312
|
searchString = "\"";
|
|
1313
|
searchStringIndex = s.indexOf(searchString);
|
|
1314
|
boundary += s.substring(0, searchStringIndex);
|
|
1315
|
boundary = "--" + boundary;
|
|
1316
|
endResult[0] = boundary;
|
|
1317
|
endResult[1] = s.substring(s.indexOf("\"", searchStringIndex + searchString.length() + 1) + 1,
|
|
1318
|
s.length());
|
|
1319
|
break;
|
|
1320
|
}
|
|
1321
|
}
|
|
1322
|
System.out.println("boundary is: " + boundary);
|
|
1323
|
return endResult;
|
|
1324
|
}
|
|
1325
|
|
|
1326
|
protected String writeMMPPartToFile(String beginSearch,
|
|
1327
|
InputStream is, String boundary, String searchString, File f)
|
|
1328
|
throws IOException
|
|
1329
|
{
|
|
1330
|
Logger logMetacat = Logger.getLogger(ResourceHandler.class);
|
|
1331
|
logMetacat.info("writing MMP parts");
|
|
1332
|
//String s = beginSearch;
|
|
1333
|
String s = null;
|
|
1334
|
FileOutputStream fos = new FileOutputStream(f);
|
|
1335
|
int numread = 0;
|
|
1336
|
byte[] b = new byte[1024];
|
|
1337
|
String writeString = "";
|
|
1338
|
|
|
1339
|
if(s == null)
|
|
1340
|
{ //starting with the first part of the stream
|
|
1341
|
numread = is.read(b, 0, 1024);
|
|
1342
|
s = new String(b, 0, numread);
|
|
1343
|
}
|
|
1344
|
|
|
1345
|
if(beginSearch != null)
|
|
1346
|
{
|
|
1347
|
s = beginSearch + s;
|
|
1348
|
}
|
|
1349
|
|
|
1350
|
boolean useCurrentS = true;
|
|
1351
|
boolean searchForBoundary = false;
|
|
1352
|
String seekString = searchString;
|
|
1353
|
|
|
1354
|
while(numread != -1)
|
|
1355
|
{
|
|
1356
|
logMetacat.info("////////////////////////iterating");
|
|
1357
|
logMetacat.info("searchForBoundary: " + searchForBoundary);
|
|
1358
|
logMetacat.info("useCurrentS: " + useCurrentS);
|
|
1359
|
logMetacat.info("seekString: " + seekString);
|
|
1360
|
logMetacat.info("in string: " + s);
|
|
1361
|
if(searchForBoundary)
|
|
1362
|
{
|
|
1363
|
seekString = boundary;
|
|
1364
|
}
|
|
1365
|
else
|
|
1366
|
{
|
|
1367
|
seekString = searchString;
|
|
1368
|
}
|
|
1369
|
|
|
1370
|
int[] result = StreamUtil.lookForMatch(seekString, s);
|
|
1371
|
if(!useCurrentS)
|
|
1372
|
{
|
|
1373
|
numread = is.read(b, 0, 1024);
|
|
1374
|
if(numread != -1)
|
|
1375
|
{
|
|
1376
|
s = new String(b, 0, numread);
|
|
1377
|
}
|
|
1378
|
else
|
|
1379
|
{
|
|
1380
|
break;
|
|
1381
|
}
|
|
1382
|
}
|
|
1383
|
|
|
1384
|
logMetacat.info("2seekString: " + seekString);
|
|
1385
|
logMetacat.info("2in string: " + s);
|
|
1386
|
|
|
1387
|
if(result[0] >= 0 && result[1] == seekString.length())
|
|
1388
|
{
|
|
1389
|
//searchString is full in s
|
|
1390
|
logMetacat.info("seekstring is fully in s");
|
|
1391
|
if(!searchForBoundary)
|
|
1392
|
{ //we're looking for searchString and we found it
|
|
1393
|
//chop off the searchString itself and start writing
|
|
1394
|
//until we find boundary
|
|
1395
|
s = s.substring(result[0] + result[1], s.length());
|
|
1396
|
if(s.length() > 0)
|
|
1397
|
{
|
|
1398
|
useCurrentS = true;
|
|
1399
|
}
|
|
1400
|
else
|
|
1401
|
{
|
|
1402
|
useCurrentS = false;
|
|
1403
|
}
|
|
1404
|
searchForBoundary = true;
|
|
1405
|
}
|
|
1406
|
else
|
|
1407
|
{ //we're writing, but we found the boundary in this chunk
|
|
1408
|
|
|
1409
|
writeString = s.substring(0, result[0]);
|
|
1410
|
//System.out.println("writing1: " + writeString);
|
|
1411
|
fos.write(writeString.getBytes());
|
|
1412
|
//we're done. break and return;
|
|
1413
|
return s.substring(result[0] + result[1], s.length());
|
|
1414
|
}
|
|
1415
|
}
|
|
1416
|
else if(result[0] > 0 && result[1] != seekString.length())
|
|
1417
|
{
|
|
1418
|
logMetacat.info("seekstring is partially in s");
|
|
1419
|
//seekString is partially in s
|
|
1420
|
//more specifically, the beginning of seekString is at the end
|
|
1421
|
//of s
|
|
1422
|
|
|
1423
|
//get the next chunk right now, see if the beginning matches
|
|
1424
|
numread = is.read(b, 0, 1024);
|
|
1425
|
String s2 = new String(b, 0, numread);
|
|
1426
|
s += s2;
|
|
1427
|
useCurrentS = true;
|
|
1428
|
}
|
|
1429
|
else
|
|
1430
|
{
|
|
1431
|
logMetacat.info("seekstring is not in s");
|
|
1432
|
//searchString is not in s
|
|
1433
|
if(searchForBoundary)
|
|
1434
|
{
|
|
1435
|
//System.out.println("writing2: " + s);
|
|
1436
|
fos.write(s.getBytes());
|
|
1437
|
}
|
|
1438
|
numread = is.read(b, 0, 1024);
|
|
1439
|
if(numread != -1)
|
|
1440
|
{
|
|
1441
|
s = new String(b, 0, numread);
|
|
1442
|
}
|
|
1443
|
else
|
|
1444
|
{
|
|
1445
|
break;
|
|
1446
|
}
|
|
1447
|
useCurrentS = true;
|
|
1448
|
}
|
|
1449
|
}
|
|
1450
|
return "";
|
|
1451
|
}
|
|
1452
|
|
|
1453
|
protected Hashtable<String, File> writeMMPPartsToFiles(InputStream is)
|
|
1454
|
throws IOException
|
|
1455
|
{
|
|
1456
|
Logger logMetacat = Logger.getLogger(ResourceHandler.class);
|
|
1457
|
logMetacat.info("Processing Mime Multipart");
|
|
1458
|
String[] boundaryResults = findBoundaryString(is);
|
|
1459
|
String boundary = boundaryResults[0];
|
|
1460
|
String s = boundaryResults[1];
|
|
1461
|
String[] searchStrings = {
|
|
1462
|
"Content-Disposition: attachment; filename=systemmetadata\n\n",
|
|
1463
|
"Content-Disposition: attachment; filename=object\n\n"};
|
|
1464
|
|
|
1465
|
File[] fileArr = getMMPTempFiles();
|
|
1466
|
Hashtable<String, File> h = new Hashtable<String, File>();
|
|
1467
|
//System.out.println("==========================Looking for SM");
|
|
1468
|
//System.out.println("writing sm to " + fileArr[0].getAbsolutePath());
|
|
1469
|
logMetacat.info("writing mime system metadata to " + fileArr[0].getAbsolutePath());
|
|
1470
|
s = writeMMPPartToFile(s.trim(), is, boundary, searchStrings[0], fileArr[0]);
|
|
1471
|
logMetacat.info("writeMMPPartToFile returned '" + s.trim() + "' after processing the system metadata");
|
|
1472
|
//System.out.println("==========================Looking for Object");
|
|
1473
|
//System.out.println("writing obj to " + fileArr[1].getAbsolutePath());
|
|
1474
|
logMetacat.info("writing mime object to " + fileArr[1].getAbsolutePath());
|
|
1475
|
writeMMPPartToFile(s.trim(), is, boundary, searchStrings[1], fileArr[1]);
|
|
1476
|
h.put("sysmeta", fileArr[0]);
|
|
1477
|
h.put("object", fileArr[1]);
|
|
1478
|
return h;
|
|
1479
|
}
|
|
1480
|
|
|
1481
|
private static File[] getMMPTempFiles()
|
|
1482
|
throws IOException
|
|
1483
|
{
|
|
1484
|
Logger logMetacat = Logger.getLogger(ResourceHandler.class);
|
|
1485
|
File tmpDir;
|
|
1486
|
try
|
|
1487
|
{
|
|
1488
|
tmpDir = new File(PropertyService.getProperty("application.tempDir"));
|
|
1489
|
}
|
|
1490
|
catch(PropertyNotFoundException pnfe)
|
|
1491
|
{
|
|
1492
|
logMetacat.error("ResourceHandler.writeMMPPartstoFiles: " +
|
|
1493
|
"application.tmpDir not found. Using /tmp instead.");
|
|
1494
|
tmpDir = new File("/tmp");
|
|
1495
|
}
|
|
1496
|
long datetimetag = new Date().getTime();
|
|
1497
|
File smFile = new File(tmpDir, "sm." + datetimetag + ".tmp");
|
|
1498
|
File objFile = new File(tmpDir, "obj." + datetimetag + ".tmp");
|
|
1499
|
File[] fileArr = {smFile, objFile};
|
|
1500
|
return fileArr;
|
|
1501
|
}
|
|
1502
|
|
|
1503
|
/**
|
|
1504
|
* return a vector where the first element is a string that represents the system
|
|
1505
|
* metadata and the 2nd element is an InputStream that is the object
|
|
1506
|
*/
|
|
1507
|
protected Hashtable<String, File> processMMP(final InputStream is)
|
|
1508
|
throws IOException
|
|
1509
|
{
|
|
1510
|
return writeMMPPartsToFiles(is);
|
|
1511
|
}
|
|
1512
|
|
|
1513
|
/**
|
|
1514
|
* Earthgrid API > Put Service >Put Function : calls MetacatHandler > handleInsertOrUpdateAction
|
|
1515
|
*
|
|
1516
|
* @param guid ID of data object to be inserted or updated
|
|
1517
|
* @throws IOException
|
|
1518
|
*/
|
|
1519
|
private void putObject(String guid, String action) {
|
|
1520
|
logMetacat.debug("Entering putObject: " + guid + "/" + action);
|
|
1521
|
OutputStream out = null;
|
|
1522
|
Hashtable<String, File> parts = null;
|
|
1523
|
try {
|
|
1524
|
out = response.getOutputStream();
|
|
1525
|
response.setStatus(200);
|
|
1526
|
response.setContentType("text/xml");
|
|
1527
|
} catch (IOException e1) {
|
|
1528
|
logMetacat.error("Could not get the output stream for writing in putObject");
|
|
1529
|
}
|
|
1530
|
try {
|
|
1531
|
|
|
1532
|
// Read the incoming data from its Mime Multipart encoding
|
|
1533
|
logMetacat.debug("Disassembling MIME multipart form");
|
|
1534
|
InputStream object = null;
|
|
1535
|
InputStream sysmeta = null;
|
|
1536
|
|
|
1537
|
try
|
|
1538
|
{
|
|
1539
|
//String req = IOUtils.toString(request.getInputStream());
|
|
1540
|
//System.out.println("request: " + req);
|
|
1541
|
//InputStream reqStr = IOUtils.toInputStream(req);
|
|
1542
|
InputStream reqStr = request.getInputStream();
|
|
1543
|
parts = processMMP(reqStr);
|
|
1544
|
object = new FileInputStream(parts.get("object"));
|
|
1545
|
sysmeta = new FileInputStream(parts.get("sysmeta"));
|
|
1546
|
|
|
1547
|
/*String obj = IOUtils.toString(object);
|
|
1548
|
String sm = IOUtils.toString(sysmeta);
|
|
1549
|
System.out.println("object: " + obj);
|
|
1550
|
System.out.println("sm: " + sm);
|
|
1551
|
object = IOUtils.toInputStream(obj);
|
|
1552
|
sysmeta = IOUtils.toInputStream(sm);*/
|
|
1553
|
|
|
1554
|
}
|
|
1555
|
catch(IOException ioe)
|
|
1556
|
{
|
|
1557
|
throw new ServiceFailure("1202",
|
|
1558
|
"IOException when processing Mime Multipart: " + ioe.getMessage());
|
|
1559
|
}
|
|
1560
|
|
|
1561
|
if ( action.equals(FUNCTION_NAME_INSERT)) { //handle inserts
|
|
1562
|
|
|
1563
|
// Check if the objectId exists
|
|
1564
|
IdentifierManager im = IdentifierManager.getInstance();
|
|
1565
|
if (im.identifierExists(guid)) {
|
|
1566
|
throw new IdentifierNotUnique("1000", "Identifier is already in use: " + guid);
|
|
1567
|
}
|
|
1568
|
|
|
1569
|
logMetacat.debug("Commence creation...");
|
|
1570
|
IBindingFactory bfact =
|
|
1571
|
BindingDirectory.getFactory(SystemMetadata.class);
|
|
1572
|
IUnmarshallingContext uctx = bfact.createUnmarshallingContext();
|
|
1573
|
SystemMetadata m = (SystemMetadata) uctx.unmarshalDocument(sysmeta, null);
|
|
1574
|
|
|
1575
|
CrudService cs = CrudService.getInstance();
|
|
1576
|
AuthToken token = new AuthToken(sessionId);
|
|
1577
|
cs.setParamsFromRequest(request);
|
|
1578
|
Identifier id = new Identifier();
|
|
1579
|
id.setValue(guid);
|
|
1580
|
Identifier rId = cs.create(token, id, object, m);
|
|
1581
|
serializeServiceType(Identifier.class, rId, out);
|
|
1582
|
|
|
1583
|
} else if (action.equals(FUNCTION_NAME_UPDATE)) { //handle updates
|
|
1584
|
IdentifierManager im = IdentifierManager.getInstance();
|
|
1585
|
CrudService cs = CrudService.getInstance();
|
|
1586
|
Identifier obsoletedGuid = new Identifier();
|
|
1587
|
Identifier id = new Identifier();
|
|
1588
|
id.setValue(guid);
|
|
1589
|
AuthToken token = new AuthToken(sessionId);
|
|
1590
|
|
|
1591
|
//do some checks
|
|
1592
|
if(params.get("obsoletedGuid") == null)
|
|
1593
|
{
|
|
1594
|
throw new InvalidRequest("1202", "obsoletedGuid must be contained in the request parameters.");
|
|
1595
|
}
|
|
1596
|
//get the obsoletedGuid
|
|
1597
|
String[] obsGuidS = params.get("obsoletedGuid");
|
|
1598
|
obsoletedGuid.setValue(obsGuidS[0]);
|
|
1599
|
|
|
1600
|
if (!im.identifierExists(obsoletedGuid.getValue()))
|
|
1601
|
{
|
|
1602
|
throw new InvalidRequest("1202", "The guid you are trying to update does not exist.");
|
|
1603
|
}
|
|
1604
|
|
|
1605
|
|
|
1606
|
logMetacat.debug("Commence update...");
|
|
1607
|
|
|
1608
|
//get the systemmetadata
|
|
1609
|
IBindingFactory bfact =
|
|
1610
|
BindingDirectory.getFactory(SystemMetadata.class);
|
|
1611
|
IUnmarshallingContext uctx = bfact.createUnmarshallingContext();
|
|
1612
|
SystemMetadata m = (SystemMetadata) uctx.unmarshalDocument(sysmeta, null);
|
|
1613
|
|
|
1614
|
//do the update
|
|
1615
|
try
|
|
1616
|
{
|
|
1617
|
cs.setParamsFromRequest(request);
|
|
1618
|
Identifier rId = cs.update(token, id, object, obsoletedGuid, m);
|
|
1619
|
serializeServiceType(Identifier.class, rId, out);
|
|
1620
|
}
|
|
1621
|
catch(NotFound e)
|
|
1622
|
{
|
|
1623
|
throw new InvalidRequest("1202", "The guid you are trying to update does not exist.");
|
|
1624
|
}
|
|
1625
|
|
|
1626
|
} else {
|
|
1627
|
throw new InvalidRequest("1000", "Operation must be create or update.");
|
|
1628
|
}
|
|
1629
|
|
|
1630
|
//clean up the MMP files
|
|
1631
|
parts.get("sysmeta").delete();
|
|
1632
|
parts.get("object").delete();
|
|
1633
|
} catch (NotAuthorized e) {
|
|
1634
|
response.setStatus(500);
|
|
1635
|
serializeException(e, out);
|
|
1636
|
} catch (InvalidToken e) {
|
|
1637
|
response.setStatus(500);
|
|
1638
|
serializeException(e, out);
|
|
1639
|
} catch (ServiceFailure e) {
|
|
1640
|
response.setStatus(500);
|
|
1641
|
serializeException(e, out);
|
|
1642
|
} catch (IdentifierNotUnique e) {
|
|
1643
|
response.setStatus(500);
|
|
1644
|
serializeException(e, out);
|
|
1645
|
} catch (UnsupportedType e) {
|
|
1646
|
response.setStatus(500);
|
|
1647
|
serializeException(e, out);
|
|
1648
|
} catch (InsufficientResources e) {
|
|
1649
|
response.setStatus(500);
|
|
1650
|
serializeException(e, out);
|
|
1651
|
} catch (InvalidSystemMetadata e) {
|
|
1652
|
response.setStatus(500);
|
|
1653
|
serializeException(e, out);
|
|
1654
|
} catch (NotImplemented e) {
|
|
1655
|
response.setStatus(500);
|
|
1656
|
serializeException(e, out);
|
|
1657
|
} catch (InvalidRequest e) {
|
|
1658
|
response.setStatus(500);
|
|
1659
|
serializeException(e, out);
|
|
1660
|
} /*catch (MessagingException e) {
|
|
1661
|
ServiceFailure sf = new ServiceFailure("1000", e.getMessage());
|
|
1662
|
serializeException(sf, out);
|
|
1663
|
} catch (IOException e) {
|
|
1664
|
response.setStatus(500);
|
|
1665
|
ServiceFailure sf = new ServiceFailure("1000", e.getMessage());
|
|
1666
|
serializeException(sf, out);
|
|
1667
|
}*/ catch (JiBXException e) {
|
|
1668
|
response.setStatus(500);
|
|
1669
|
e.printStackTrace(System.out);
|
|
1670
|
InvalidSystemMetadata ism = new InvalidSystemMetadata("1080", e.getMessage());
|
|
1671
|
serializeException(ism, out);
|
|
1672
|
}
|
|
1673
|
finally
|
|
1674
|
{
|
|
1675
|
if(parts != null)
|
|
1676
|
{
|
|
1677
|
parts.get("sysmeta").delete();
|
|
1678
|
parts.get("object").delete();
|
|
1679
|
}
|
|
1680
|
}
|
|
1681
|
}
|
|
1682
|
|
|
1683
|
/**
|
|
1684
|
* Handle delete
|
|
1685
|
* @param guid ID of data object to be deleted
|
|
1686
|
* @throws IOException
|
|
1687
|
*/
|
|
1688
|
private void deleteObject(String guid) throws IOException
|
|
1689
|
{
|
|
1690
|
// Look up the localId for this global identifier
|
|
1691
|
System.out.println("!!!!!!!!!!!!!!!!!deleting object " + guid);
|
|
1692
|
IdentifierManager im = IdentifierManager.getInstance();
|
|
1693
|
String localId = "";
|
|
1694
|
OutputStream out = response.getOutputStream();
|
|
1695
|
response.setStatus(200);
|
|
1696
|
try {
|
|
1697
|
localId = im.getLocalId(guid);
|
|
1698
|
} catch (McdbDocNotFoundException e) {
|
|
1699
|
NotFound nf = new NotFound("1340", "Document with guid " + guid + " not found.");
|
|
1700
|
response.setStatus(404);
|
|
1701
|
serializeException(nf, out);
|
|
1702
|
}
|
|
1703
|
|
|
1704
|
AuthToken token = new AuthToken(sessionId);
|
|
1705
|
CrudService cs = CrudService.getInstance();
|
|
1706
|
Identifier id = new Identifier();
|
|
1707
|
id.setValue(guid);
|
|
1708
|
try
|
|
1709
|
{
|
|
1710
|
System.out.println("Calling delete");
|
|
1711
|
cs.delete(token, id);
|
|
1712
|
serializeServiceType(Identifier.class, id, out);
|
|
1713
|
}
|
|
1714
|
catch (NotAuthorized e) {
|
|
1715
|
response.setStatus(500);
|
|
1716
|
serializeException(e, out);
|
|
1717
|
} catch (InvalidToken e) {
|
|
1718
|
response.setStatus(500);
|
|
1719
|
serializeException(e, out);
|
|
1720
|
} catch (ServiceFailure e) {
|
|
1721
|
response.setStatus(500);
|
|
1722
|
serializeException(e, out);
|
|
1723
|
} catch (NotImplemented e) {
|
|
1724
|
response.setStatus(500);
|
|
1725
|
serializeException(e, out);
|
|
1726
|
} catch (InvalidRequest e) {
|
|
1727
|
response.setStatus(500);
|
|
1728
|
serializeException(e, out);
|
|
1729
|
} catch(NotFound e) {
|
|
1730
|
response.setStatus(500);
|
|
1731
|
serializeException(e, out);
|
|
1732
|
} catch(JiBXException e) {
|
|
1733
|
response.setStatus(500);
|
|
1734
|
serializeException(new ServiceFailure("1350", "JiBXException: " + e.getMessage()), out);
|
|
1735
|
}
|
|
1736
|
out.close();
|
|
1737
|
}
|
|
1738
|
|
|
1739
|
/**
|
|
1740
|
* set the access perms on a document
|
|
1741
|
* @throws IOException
|
|
1742
|
*/
|
|
1743
|
private void setaccess() throws Exception
|
|
1744
|
{
|
|
1745
|
try
|
|
1746
|
{
|
|
1747
|
String guid = params.get("guid")[0];
|
|
1748
|
Identifier id = new Identifier();
|
|
1749
|
id.setValue(guid);
|
|
1750
|
AuthToken token = new AuthToken(sessionId);
|
|
1751
|
String principal = params.get("principal")[0];
|
|
1752
|
String permission = params.get("permission")[0];
|
|
1753
|
String permissionType = params.get("permissionType")[0];
|
|
1754
|
String permissionOrder = params.get("permissionOrder")[0];
|
|
1755
|
String setSystemMetadata = params.get("setsystemmetadata")[0];
|
|
1756
|
boolean ssm = false;
|
|
1757
|
if(setSystemMetadata.equals("true") || setSystemMetadata.equals("TRUE") ||
|
|
1758
|
setSystemMetadata.equals("yes"))
|
|
1759
|
{
|
|
1760
|
ssm = true;
|
|
1761
|
}
|
|
1762
|
CrudService cs = CrudService.getInstance();
|
|
1763
|
//TODO: remove the setsystemmetadata param and set this so the systemmetadata always gets set
|
|
1764
|
cs.setAccess(token, id, principal, permission, permissionType, permissionOrder, ssm);
|
|
1765
|
}
|
|
1766
|
catch(Exception e)
|
|
1767
|
{
|
|
1768
|
response.setStatus(500);
|
|
1769
|
printError("Error setting access in ResourceHandler: " + e.getMessage(), response);
|
|
1770
|
throw e;
|
|
1771
|
}
|
|
1772
|
}
|
|
1773
|
|
|
1774
|
/**
|
|
1775
|
* Earthgrid API > Authentication Service > Login Function : calls MetacatHandler > handleLoginAction
|
|
1776
|
*
|
|
1777
|
* @throws IOException
|
|
1778
|
*/
|
|
1779
|
private void login() throws IOException {
|
|
1780
|
PrintWriter out = response.getWriter();
|
|
1781
|
response.setStatus(200);
|
|
1782
|
response.setContentType("text/xml");
|
|
1783
|
handler.handleLoginAction(out, params, request, response);
|
|
1784
|
out.close();
|
|
1785
|
}
|
|
1786
|
|
|
1787
|
/**
|
|
1788
|
* Earthgrid API > Authentication Service > Logout Function : calls MetacatHandler > handleLogoutAction
|
|
1789
|
*
|
|
1790
|
* @throws IOException
|
|
1791
|
*/
|
|
1792
|
private void logout() throws IOException {
|
|
1793
|
PrintWriter out = response.getWriter();
|
|
1794
|
response.setStatus(200);
|
|
1795
|
response.setContentType("text/xml");
|
|
1796
|
handler.handleLogoutAction(out, params, request, response);
|
|
1797
|
out.close();
|
|
1798
|
}
|
|
1799
|
|
|
1800
|
/**
|
|
1801
|
* Prints xml response
|
|
1802
|
* @param message Message to be displayed
|
|
1803
|
* @param response Servlet response that xml message will be printed
|
|
1804
|
* */
|
|
1805
|
private void printError(String message, HttpServletResponse response) {
|
|
1806
|
try {
|
|
1807
|
logMetacat.error("ResourceHandler: Printing error to servlet response: " + message);
|
|
1808
|
PrintWriter out = response.getWriter();
|
|
1809
|
response.setContentType("text/xml");
|
|
1810
|
out.println("<?xml version=\"1.0\"?>");
|
|
1811
|
out.println("<error>");
|
|
1812
|
out.println(message);
|
|
1813
|
out.println("</error>");
|
|
1814
|
out.close();
|
|
1815
|
} catch (IOException e) {
|
|
1816
|
e.printStackTrace();
|
|
1817
|
}
|
|
1818
|
}
|
|
1819
|
|
|
1820
|
/**
|
|
1821
|
* serialize a D1 exception using jibx
|
|
1822
|
* @param e
|
|
1823
|
* @param out
|
|
1824
|
*/
|
|
1825
|
private void serializeException(BaseException e, OutputStream out) {
|
|
1826
|
// TODO: Use content negotiation to determine which return format to use
|
|
1827
|
response.setContentType("text/xml");
|
|
1828
|
response.setStatus(e.getCode());
|
|
1829
|
|
|
1830
|
logMetacat.error("ResourceHandler: Serializing exception with code " + e.getCode() + ": " + e.getMessage());
|
|
1831
|
e.printStackTrace();
|
|
1832
|
|
|
1833
|
try {
|
|
1834
|
IOUtils.write(e.serialize(BaseException.FMT_XML), out);
|
|
1835
|
} catch (IOException e1) {
|
|
1836
|
logMetacat.error("Error writing exception to stream. "
|
|
1837
|
+ e1.getMessage());
|
|
1838
|
}
|
|
1839
|
}
|
|
1840
|
|
|
1841
|
/**
|
|
1842
|
* create a new ServiceMethod declaration
|
|
1843
|
* @param name
|
|
1844
|
* @param rest
|
|
1845
|
* @param implemented
|
|
1846
|
* @return
|
|
1847
|
*/
|
|
1848
|
private ServiceMethod getServiceMethod(String name, String rest, boolean implemented)
|
|
1849
|
{
|
|
1850
|
ServiceMethod sm = new ServiceMethod();
|
|
1851
|
sm.setImplemented(implemented);
|
|
1852
|
sm.setName(name);
|
|
1853
|
sm.setRest(rest);
|
|
1854
|
return sm;
|
|
1855
|
}
|
|
1856
|
|
|
1857
|
}
|