|
1
|
/**
|
|
2
|
* '$RCSfile$'
|
|
3
|
* Copyright: 2011 Regents of the University of California and the
|
|
4
|
* National Center for Ecological Analysis and Synthesis
|
|
5
|
*
|
|
6
|
* '$Author: leinfelder $'
|
|
7
|
* '$Date: 2014-07-23 16:19:48 -0700 (Wed, 23 Jul 2014) $'
|
|
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.v2;
|
|
24
|
|
|
25
|
import java.io.File;
|
|
26
|
import java.io.FileInputStream;
|
|
27
|
import java.io.IOException;
|
|
28
|
import java.io.InputStream;
|
|
29
|
import java.io.OutputStream;
|
|
30
|
import java.util.Date;
|
|
31
|
import java.util.Enumeration;
|
|
32
|
import java.util.Map;
|
|
33
|
import java.util.concurrent.ExecutorService;
|
|
34
|
import java.util.concurrent.Executors;
|
|
35
|
|
|
36
|
import javax.servlet.ServletContext;
|
|
37
|
import javax.servlet.http.HttpServletRequest;
|
|
38
|
import javax.servlet.http.HttpServletResponse;
|
|
39
|
import javax.xml.parsers.ParserConfigurationException;
|
|
40
|
|
|
41
|
import org.apache.commons.fileupload.FileUploadException;
|
|
42
|
import org.apache.commons.io.IOUtils;
|
|
43
|
import org.apache.log4j.Logger;
|
|
44
|
import org.dataone.client.v2.formats.ObjectFormatInfo;
|
|
45
|
import org.dataone.mimemultipart.MultipartRequest;
|
|
46
|
import org.dataone.mimemultipart.MultipartRequestResolver;
|
|
47
|
import org.dataone.service.exceptions.BaseException;
|
|
48
|
import org.dataone.service.exceptions.IdentifierNotUnique;
|
|
49
|
import org.dataone.service.exceptions.InsufficientResources;
|
|
50
|
import org.dataone.service.exceptions.InvalidRequest;
|
|
51
|
import org.dataone.service.exceptions.InvalidSystemMetadata;
|
|
52
|
import org.dataone.service.exceptions.InvalidToken;
|
|
53
|
import org.dataone.service.exceptions.NotAuthorized;
|
|
54
|
import org.dataone.service.exceptions.NotFound;
|
|
55
|
import org.dataone.service.exceptions.NotImplemented;
|
|
56
|
import org.dataone.service.exceptions.ServiceFailure;
|
|
57
|
import org.dataone.service.exceptions.SynchronizationFailed;
|
|
58
|
import org.dataone.service.exceptions.UnsupportedType;
|
|
59
|
import org.dataone.service.types.v1.Checksum;
|
|
60
|
import org.dataone.service.types.v1.DescribeResponse;
|
|
61
|
import org.dataone.service.types.v1.Event;
|
|
62
|
import org.dataone.service.types.v1.Identifier;
|
|
63
|
import org.dataone.service.types.v2.Log;
|
|
64
|
import org.dataone.service.types.v2.Node;
|
|
65
|
import org.dataone.service.types.v1.NodeReference;
|
|
66
|
import org.dataone.service.types.v1.ObjectFormatIdentifier;
|
|
67
|
import org.dataone.service.types.v1.ObjectList;
|
|
68
|
import org.dataone.service.types.v1.Permission;
|
|
69
|
import org.dataone.service.types.v2.SystemMetadata;
|
|
70
|
import org.dataone.service.types.v1_1.QueryEngineDescription;
|
|
71
|
import org.dataone.service.types.v1_1.QueryEngineList;
|
|
72
|
import org.dataone.service.util.Constants;
|
|
73
|
import org.dataone.service.util.DateTimeMarshaller;
|
|
74
|
import org.dataone.service.util.ExceptionHandler;
|
|
75
|
import org.dataone.service.util.TypeMarshaller;
|
|
76
|
import org.jibx.runtime.JiBXException;
|
|
77
|
import org.xml.sax.SAXException;
|
|
78
|
|
|
79
|
import edu.ucsb.nceas.metacat.common.query.stream.ContentTypeInputStream;
|
|
80
|
import edu.ucsb.nceas.metacat.dataone.MNodeService;
|
|
81
|
import edu.ucsb.nceas.metacat.properties.PropertyService;
|
|
82
|
import edu.ucsb.nceas.metacat.restservice.D1ResourceHandler;
|
|
83
|
import edu.ucsb.nceas.metacat.util.DeleteOnCloseFileInputStream;
|
|
84
|
import edu.ucsb.nceas.utilities.PropertyNotFoundException;
|
|
85
|
|
|
86
|
/**
|
|
87
|
* MN REST service implementation handler
|
|
88
|
*
|
|
89
|
* ******************
|
|
90
|
* MNCore -- DONE
|
|
91
|
* ping() - GET /d1/mn/monitor/ping
|
|
92
|
* log() - GET /d1/mn/log
|
|
93
|
* **getObjectStatistics() - GET /d1/mn/monitor/object
|
|
94
|
* getOperationsStatistics - GET /d1/mn/monitor/event
|
|
95
|
* **getStatus - GET /d1/mn/monitor/status
|
|
96
|
* getCapabilities() - GET /d1/mn/ and /d1/mn/node
|
|
97
|
*
|
|
98
|
* MNRead -- DONE
|
|
99
|
* get() - GET /d1/mn/object/PID
|
|
100
|
* getSystemMetadata() - GET /d1/mn/meta/PID
|
|
101
|
* describe() - HEAD /d1/mn/object/PID
|
|
102
|
* getChecksum() - GET /d1/mn/checksum/PID
|
|
103
|
* listObjects() - GET /d1/mn/object
|
|
104
|
* synchronizationFailed() - POST /d1/mn/error
|
|
105
|
*
|
|
106
|
* MNAuthorization -- DONE
|
|
107
|
* isAuthorized() - GET /d1/mn/isAuthorized/PID
|
|
108
|
* setAccessPolicy() - PUT /d1/mn/accessRules/PID
|
|
109
|
*
|
|
110
|
* MNStorage - DONE
|
|
111
|
* create() - POST /d1/mn/object/PID
|
|
112
|
* update() - PUT /d1/mn/object/PID
|
|
113
|
* delete() - DELETE /d1/mn/object/PID
|
|
114
|
* archive() - PUT /d1/mn/archive/PID
|
|
115
|
|
|
116
|
* systemMetadataChanged() - POST /dirtySystemMetadata/PID
|
|
117
|
*
|
|
118
|
* MNReplication
|
|
119
|
* replicate() - POST /d1/mn/replicate
|
|
120
|
* getReplica() - GET /d1/mn/replica
|
|
121
|
*
|
|
122
|
* ******************
|
|
123
|
* @author leinfelder
|
|
124
|
*
|
|
125
|
*/
|
|
126
|
public class MNResourceHandler extends D1ResourceHandler {
|
|
127
|
|
|
128
|
// MN-specific API Resources
|
|
129
|
protected static final String RESOURCE_MONITOR = "monitor";
|
|
130
|
protected static final String RESOURCE_REPLICATE = "replicate";
|
|
131
|
protected static final String RESOURCE_REPLICAS = "replica";
|
|
132
|
protected static final String RESOURCE_NODE = "node";
|
|
133
|
protected static final String RESOURCE_ERROR = "error";
|
|
134
|
protected static final String RESOURCE_META_CHANGED = "dirtySystemMetadata";
|
|
135
|
protected static final String RESOURCE_GENERATE_ID = "generate";
|
|
136
|
protected static final String RESOURCE_PUBLISH = "publish";
|
|
137
|
protected static final String RESOURCE_PACKAGE = "package";
|
|
138
|
protected static final String RESOURCE_VIEWS = "views";
|
|
139
|
|
|
140
|
|
|
141
|
|
|
142
|
// shared executor
|
|
143
|
private static ExecutorService executor = null;
|
|
144
|
|
|
145
|
static {
|
|
146
|
// use a shared executor service with nThreads == one less than available processors
|
|
147
|
int availableProcessors = Runtime.getRuntime().availableProcessors();
|
|
148
|
int nThreads = availableProcessors * 1;
|
|
149
|
nThreads--;
|
|
150
|
nThreads = Math.max(1, nThreads);
|
|
151
|
executor = Executors.newFixedThreadPool(nThreads);
|
|
152
|
}
|
|
153
|
|
|
154
|
/**
|
|
155
|
* Initializes new instance by setting servlet context,request and response
|
|
156
|
* */
|
|
157
|
public MNResourceHandler(ServletContext servletContext,
|
|
158
|
HttpServletRequest request, HttpServletResponse response) {
|
|
159
|
super(servletContext, request, response);
|
|
160
|
logMetacat = Logger.getLogger(MNResourceHandler.class);
|
|
161
|
}
|
|
162
|
|
|
163
|
@Override
|
|
164
|
protected boolean isD1Enabled() {
|
|
165
|
|
|
166
|
boolean enabled = false;
|
|
167
|
try {
|
|
168
|
enabled = Boolean.parseBoolean(PropertyService.getProperty("dataone.mn.services.enabled"));
|
|
169
|
} catch (PropertyNotFoundException e) {
|
|
170
|
logMetacat.error("Could not check if DataONE is enabled: " + e.getMessage());
|
|
171
|
}
|
|
172
|
|
|
173
|
return enabled;
|
|
174
|
}
|
|
175
|
|
|
176
|
/**
|
|
177
|
* This function is called from REST API servlet and handles each request to the servlet
|
|
178
|
*
|
|
179
|
* @param httpVerb (GET, POST, PUT or DELETE)
|
|
180
|
*/
|
|
181
|
@Override
|
|
182
|
public void handle(byte httpVerb) {
|
|
183
|
// prepare the handler
|
|
184
|
super.handle(httpVerb);
|
|
185
|
|
|
186
|
try {
|
|
187
|
|
|
188
|
// only service requests if we have D1 configured
|
|
189
|
if (!isD1Enabled()) {
|
|
190
|
ServiceFailure se = new ServiceFailure("0000", "DataONE services are not enabled on this node");
|
|
191
|
serializeException(se, response.getOutputStream());
|
|
192
|
return;
|
|
193
|
}
|
|
194
|
|
|
195
|
// get the resource
|
|
196
|
String resource = request.getPathInfo();
|
|
197
|
resource = resource.substring(resource.indexOf("/") + 1);
|
|
198
|
|
|
199
|
// default to node info
|
|
200
|
if (resource.equals("")) {
|
|
201
|
resource = RESOURCE_NODE;
|
|
202
|
}
|
|
203
|
|
|
204
|
// get the rest of the path info
|
|
205
|
String extra = null;
|
|
206
|
|
|
207
|
logMetacat.debug("handling verb " + httpVerb + " request with resource '" + resource + "'");
|
|
208
|
logMetacat.debug("resource: '" + resource + "'");
|
|
209
|
boolean status = false;
|
|
210
|
|
|
211
|
if (resource != null) {
|
|
212
|
|
|
213
|
if (resource.startsWith(RESOURCE_NODE)) {
|
|
214
|
// node response
|
|
215
|
node();
|
|
216
|
status = true;
|
|
217
|
} else if (resource.startsWith(RESOURCE_IS_AUTHORIZED)) {
|
|
218
|
if (httpVerb == GET) {
|
|
219
|
// after the command
|
|
220
|
extra = parseTrailing(resource, RESOURCE_IS_AUTHORIZED);
|
|
221
|
// check the access rules
|
|
222
|
isAuthorized(extra);
|
|
223
|
status = true;
|
|
224
|
logMetacat.debug("done getting access");
|
|
225
|
}
|
|
226
|
} else if (resource.startsWith(RESOURCE_META)) {
|
|
227
|
logMetacat.debug("Using resource 'meta'");
|
|
228
|
// get
|
|
229
|
if (httpVerb == GET) {
|
|
230
|
// after the command
|
|
231
|
extra = parseTrailing(resource, RESOURCE_META);
|
|
232
|
getSystemMetadataObject(extra);
|
|
233
|
status = true;
|
|
234
|
}
|
|
235
|
|
|
236
|
} else if (resource.startsWith(RESOURCE_OBJECTS)) {
|
|
237
|
logMetacat.debug("Using resource 'object'");
|
|
238
|
// after the command
|
|
239
|
extra = parseTrailing(resource, RESOURCE_OBJECTS);
|
|
240
|
logMetacat.debug("objectId: " + extra);
|
|
241
|
logMetacat.debug("verb:" + httpVerb);
|
|
242
|
|
|
243
|
if (httpVerb == GET) {
|
|
244
|
getObject(extra);
|
|
245
|
status = true;
|
|
246
|
} else if (httpVerb == POST) {
|
|
247
|
// part of the params, not the URL
|
|
248
|
putObject(null, FUNCTION_NAME_INSERT);
|
|
249
|
status = true;
|
|
250
|
} else if (httpVerb == PUT) {
|
|
251
|
putObject(extra, FUNCTION_NAME_UPDATE);
|
|
252
|
status = true;
|
|
253
|
} else if (httpVerb == DELETE) {
|
|
254
|
deleteObject(extra);
|
|
255
|
status = true;
|
|
256
|
} else if (httpVerb == HEAD) {
|
|
257
|
describeObject(extra);
|
|
258
|
status = true;
|
|
259
|
}
|
|
260
|
|
|
261
|
} else if (resource.startsWith(RESOURCE_LOG)) {
|
|
262
|
logMetacat.debug("Using resource 'log'");
|
|
263
|
// handle log events
|
|
264
|
if (httpVerb == GET) {
|
|
265
|
getLog();
|
|
266
|
status = true;
|
|
267
|
}
|
|
268
|
} else if (resource.startsWith(Constants.RESOURCE_ARCHIVE)) {
|
|
269
|
logMetacat.debug("Using resource " + Constants.RESOURCE_ARCHIVE);
|
|
270
|
// handle archive events
|
|
271
|
if (httpVerb == PUT) {
|
|
272
|
extra = parseTrailing(resource, Constants.RESOURCE_ARCHIVE);
|
|
273
|
archive(extra);
|
|
274
|
status = true;
|
|
275
|
}
|
|
276
|
} else if (resource.startsWith(Constants.RESOURCE_CHECKSUM)) {
|
|
277
|
logMetacat.debug("Using resource 'checksum'");
|
|
278
|
// handle checksum requests
|
|
279
|
if (httpVerb == GET) {
|
|
280
|
// after the command
|
|
281
|
extra = parseTrailing(resource, Constants.RESOURCE_CHECKSUM);
|
|
282
|
checksum(extra);
|
|
283
|
status = true;
|
|
284
|
}
|
|
285
|
} else if (resource.startsWith(RESOURCE_MONITOR)) {
|
|
286
|
// there are various parts to monitoring
|
|
287
|
if (httpVerb == GET) {
|
|
288
|
// after the command
|
|
289
|
extra = parseTrailing(resource, RESOURCE_MONITOR);
|
|
290
|
|
|
291
|
// ping
|
|
292
|
if (extra.toLowerCase().equals("ping")) {
|
|
293
|
logMetacat.debug("processing ping request");
|
|
294
|
Date result = MNodeService.getInstance(request).ping();
|
|
295
|
// TODO: send to output
|
|
296
|
status = true;
|
|
297
|
|
|
298
|
}
|
|
299
|
|
|
300
|
}
|
|
301
|
} else if (resource.startsWith(RESOURCE_REPLICATE)) {
|
|
302
|
if (httpVerb == POST) {
|
|
303
|
logMetacat.debug("processing replicate request");
|
|
304
|
replicate();
|
|
305
|
status = true;
|
|
306
|
}
|
|
307
|
} else if (resource.startsWith(RESOURCE_ERROR)) {
|
|
308
|
// sync error
|
|
309
|
if (httpVerb == POST) {
|
|
310
|
syncError();
|
|
311
|
status = true;
|
|
312
|
}
|
|
313
|
} else if (resource.startsWith(RESOURCE_META_CHANGED)) {
|
|
314
|
// system metadata changed
|
|
315
|
if (httpVerb == POST) {
|
|
316
|
systemMetadataChanged();
|
|
317
|
status = true;
|
|
318
|
}
|
|
319
|
} else if (resource.startsWith(RESOURCE_REPLICAS)) {
|
|
320
|
// get replica
|
|
321
|
if (httpVerb == GET) {
|
|
322
|
extra = parseTrailing(resource, RESOURCE_REPLICAS);
|
|
323
|
getReplica(extra);
|
|
324
|
status = true;
|
|
325
|
}
|
|
326
|
} else if (resource.startsWith(RESOURCE_QUERY)) {
|
|
327
|
logMetacat.debug("Using resource " + RESOURCE_QUERY);
|
|
328
|
// after the command
|
|
329
|
extra = parseTrailing(resource, RESOURCE_QUERY);
|
|
330
|
logMetacat.debug("query extra: " + extra);
|
|
331
|
|
|
332
|
String engine = null;
|
|
333
|
String query = null;
|
|
334
|
|
|
335
|
if (extra != null) {
|
|
336
|
// get the engine
|
|
337
|
int engineIndex = extra.length();
|
|
338
|
if (extra.indexOf("/") > -1) {
|
|
339
|
engineIndex = extra.indexOf("/");
|
|
340
|
}
|
|
341
|
engine = extra.substring(0, engineIndex);
|
|
342
|
logMetacat.debug("query engine: " + engine);
|
|
343
|
|
|
344
|
// get the query if it is there
|
|
345
|
query = extra.substring(engineIndex, extra.length());
|
|
346
|
if (query != null && query.length() == 0) {
|
|
347
|
query = null;
|
|
348
|
} else {
|
|
349
|
if (query.startsWith("/")) {
|
|
350
|
query = query.substring(1);
|
|
351
|
}
|
|
352
|
// remove the query delimiter if it exists
|
|
353
|
if (query.startsWith("?")) {
|
|
354
|
query = query.substring(1);
|
|
355
|
}
|
|
356
|
}
|
|
357
|
logMetacat.debug("query: " + query);
|
|
358
|
|
|
359
|
}
|
|
360
|
logMetacat.debug("verb:" + httpVerb);
|
|
361
|
if (httpVerb == GET) {
|
|
362
|
doQuery(engine, query);
|
|
363
|
status = true;
|
|
364
|
}
|
|
365
|
} else if (resource.startsWith(RESOURCE_GENERATE_ID)) {
|
|
366
|
// generate an id
|
|
367
|
if (httpVerb == POST) {
|
|
368
|
generateIdentifier();
|
|
369
|
status = true;
|
|
370
|
}
|
|
371
|
} else if (resource.startsWith(RESOURCE_PUBLISH)) {
|
|
372
|
logMetacat.debug("Using resource: " + RESOURCE_PUBLISH);
|
|
373
|
// PUT
|
|
374
|
if (httpVerb == PUT) {
|
|
375
|
// after the command
|
|
376
|
extra = parseTrailing(resource, RESOURCE_PUBLISH);
|
|
377
|
publish(extra);
|
|
378
|
status = true;
|
|
379
|
}
|
|
380
|
} else if (resource.startsWith(RESOURCE_PACKAGE)) {
|
|
381
|
logMetacat.debug("Using resource: " + RESOURCE_PACKAGE);
|
|
382
|
// after the command
|
|
383
|
extra = parseTrailing(resource, RESOURCE_PACKAGE);
|
|
384
|
|
|
385
|
String format = null;
|
|
386
|
String pid = null;
|
|
387
|
|
|
388
|
if (extra != null) {
|
|
389
|
// get the format
|
|
390
|
int formatIndex = extra.length();
|
|
391
|
if (extra.indexOf("/") > -1) {
|
|
392
|
formatIndex = extra.indexOf("/");
|
|
393
|
}
|
|
394
|
format = extra.substring(0, formatIndex);
|
|
395
|
logMetacat.debug("package format: " + format);
|
|
396
|
|
|
397
|
// get the pid if it is there
|
|
398
|
pid = extra.substring(formatIndex, extra.length());
|
|
399
|
if (pid != null && pid.length() == 0) {
|
|
400
|
pid = null;
|
|
401
|
} else {
|
|
402
|
if (pid.startsWith("/")) {
|
|
403
|
pid = pid.substring(1);
|
|
404
|
}
|
|
405
|
}
|
|
406
|
logMetacat.debug("pid: " + pid);
|
|
407
|
|
|
408
|
}
|
|
409
|
|
|
410
|
// get
|
|
411
|
if (httpVerb == GET) {
|
|
412
|
|
|
413
|
getPackage(format, pid);
|
|
414
|
status = true;
|
|
415
|
}
|
|
416
|
} else if (resource.startsWith(RESOURCE_VIEWS)) {
|
|
417
|
logMetacat.debug("Using resource " + RESOURCE_VIEWS);
|
|
418
|
// after the command
|
|
419
|
extra = parseTrailing(resource, RESOURCE_VIEWS);
|
|
420
|
logMetacat.debug("view extra: " + extra);
|
|
421
|
|
|
422
|
String format = null;
|
|
423
|
String pid = null;
|
|
424
|
|
|
425
|
if (extra != null) {
|
|
426
|
// get the format
|
|
427
|
int formatIndex = extra.length();
|
|
428
|
if (extra.indexOf("/") > -1) {
|
|
429
|
formatIndex = extra.indexOf("/");
|
|
430
|
}
|
|
431
|
format = extra.substring(0, formatIndex);
|
|
432
|
logMetacat.debug("view format: " + format);
|
|
433
|
|
|
434
|
// get the pid if it is there
|
|
435
|
pid = extra.substring(formatIndex, extra.length());
|
|
436
|
if (pid != null && pid.length() == 0) {
|
|
437
|
pid = null;
|
|
438
|
} else {
|
|
439
|
if (pid.startsWith("/")) {
|
|
440
|
pid = pid.substring(1);
|
|
441
|
}
|
|
442
|
}
|
|
443
|
logMetacat.debug("pid: " + pid);
|
|
444
|
|
|
445
|
}
|
|
446
|
logMetacat.debug("verb:" + httpVerb);
|
|
447
|
if (httpVerb == GET) {
|
|
448
|
doViews(format, pid);
|
|
449
|
status = true;
|
|
450
|
}
|
|
451
|
}
|
|
452
|
|
|
453
|
if (!status) {
|
|
454
|
throw new ServiceFailure("0000", "Unknown error, status = " + status);
|
|
455
|
}
|
|
456
|
} else {
|
|
457
|
throw new InvalidRequest("0000", "No resource matched for " + resource);
|
|
458
|
}
|
|
459
|
} catch (BaseException be) {
|
|
460
|
// report Exceptions as clearly as possible
|
|
461
|
OutputStream out = null;
|
|
462
|
try {
|
|
463
|
out = response.getOutputStream();
|
|
464
|
} catch (IOException e) {
|
|
465
|
logMetacat.error("Could not get output stream from response", e);
|
|
466
|
}
|
|
467
|
serializeException(be, out);
|
|
468
|
} catch (Exception e) {
|
|
469
|
// report Exceptions as clearly and generically as possible
|
|
470
|
logMetacat.error(e.getClass() + ": " + e.getMessage(), e);
|
|
471
|
OutputStream out = null;
|
|
472
|
try {
|
|
473
|
out = response.getOutputStream();
|
|
474
|
} catch (IOException ioe) {
|
|
475
|
logMetacat.error("Could not get output stream from response", ioe);
|
|
476
|
}
|
|
477
|
ServiceFailure se = new ServiceFailure("0000", e.getMessage());
|
|
478
|
serializeException(se, out);
|
|
479
|
}
|
|
480
|
}
|
|
481
|
|
|
482
|
|
|
483
|
private void doQuery(String engine, String query) {
|
|
484
|
|
|
485
|
OutputStream out = null;
|
|
486
|
|
|
487
|
try {
|
|
488
|
// NOTE: we set the session explicitly for the MNode instance since these methods do not provide a parameter
|
|
489
|
if (engine == null) {
|
|
490
|
// just looking for list of engines
|
|
491
|
MNodeService mnode = MNodeService.getInstance(request);
|
|
492
|
mnode.setSession(session);
|
|
493
|
QueryEngineList qel = mnode.listQueryEngines(session);
|
|
494
|
response.setContentType("text/xml");
|
|
495
|
response.setStatus(200);
|
|
496
|
out = response.getOutputStream();
|
|
497
|
TypeMarshaller.marshalTypeToOutputStream(qel, out);
|
|
498
|
return;
|
|
499
|
} else {
|
|
500
|
if (query != null) {
|
|
501
|
MNodeService mnode = MNodeService.getInstance(request);
|
|
502
|
mnode.setSession(session);
|
|
503
|
InputStream stream = mnode.query(session, engine, query);
|
|
504
|
|
|
505
|
// set the content-type if we have it from the implementation
|
|
506
|
if (stream instanceof ContentTypeInputStream) {
|
|
507
|
//response.setContentType("application/octet-stream");
|
|
508
|
//response.setContentType("text/xml");
|
|
509
|
response.setContentType(((ContentTypeInputStream) stream).getContentType());
|
|
510
|
}
|
|
511
|
response.setStatus(200);
|
|
512
|
out = response.getOutputStream();
|
|
513
|
// write the results to the output stream
|
|
514
|
IOUtils.copyLarge(stream, out);
|
|
515
|
return;
|
|
516
|
} else {
|
|
517
|
MNodeService mnode = MNodeService.getInstance(request);
|
|
518
|
mnode.setSession(session);
|
|
519
|
QueryEngineDescription qed = mnode.getQueryEngineDescription(session, engine);
|
|
520
|
response.setContentType("text/xml");
|
|
521
|
response.setStatus(200);
|
|
522
|
out = response.getOutputStream();
|
|
523
|
TypeMarshaller.marshalTypeToOutputStream(qed, out);
|
|
524
|
return;
|
|
525
|
}
|
|
526
|
}
|
|
527
|
|
|
528
|
|
|
529
|
} catch (BaseException be) {
|
|
530
|
// report Exceptions as clearly as possible
|
|
531
|
try {
|
|
532
|
out = response.getOutputStream();
|
|
533
|
} catch (IOException e) {
|
|
534
|
logMetacat.error("Could not get output stream from response", e);
|
|
535
|
}
|
|
536
|
serializeException(be, out);
|
|
537
|
} catch (Exception e) {
|
|
538
|
// report Exceptions as clearly and generically as possible
|
|
539
|
logMetacat.error(e.getClass() + ": " + e.getMessage(), e);
|
|
540
|
try {
|
|
541
|
out = response.getOutputStream();
|
|
542
|
} catch (IOException ioe) {
|
|
543
|
logMetacat.error("Could not get output stream from response", ioe);
|
|
544
|
}
|
|
545
|
ServiceFailure se = new ServiceFailure("0000", e.getMessage());
|
|
546
|
serializeException(se, out);
|
|
547
|
}
|
|
548
|
}
|
|
549
|
|
|
550
|
private void doViews(String format, String pid) {
|
|
551
|
|
|
552
|
OutputStream out = null;
|
|
553
|
MNodeService mnode = MNodeService.getInstance(request);
|
|
554
|
|
|
555
|
try {
|
|
556
|
// get a list of views
|
|
557
|
if (pid != null) {
|
|
558
|
Identifier identifier = new Identifier();
|
|
559
|
identifier.setValue(pid);
|
|
560
|
InputStream stream = mnode.view(session, format, identifier);
|
|
561
|
|
|
562
|
// set the content-type if we have it from the implementation
|
|
563
|
if (stream instanceof ContentTypeInputStream) {
|
|
564
|
response.setContentType(((ContentTypeInputStream) stream).getContentType());
|
|
565
|
}
|
|
566
|
response.setStatus(200);
|
|
567
|
out = response.getOutputStream();
|
|
568
|
// write the results to the output stream
|
|
569
|
IOUtils.copyLarge(stream, out);
|
|
570
|
return;
|
|
571
|
} else {
|
|
572
|
// TODO: list the registered views
|
|
573
|
BaseException ni = new NotImplemented("9999", "MN.listViews() is not implemented at this node");
|
|
574
|
throw ni;
|
|
575
|
}
|
|
576
|
|
|
577
|
|
|
578
|
} catch (BaseException be) {
|
|
579
|
// report Exceptions as clearly as possible
|
|
580
|
try {
|
|
581
|
out = response.getOutputStream();
|
|
582
|
} catch (IOException e) {
|
|
583
|
logMetacat.error("Could not get output stream from response", e);
|
|
584
|
}
|
|
585
|
serializeException(be, out);
|
|
586
|
} catch (Exception e) {
|
|
587
|
// report Exceptions as clearly and generically as possible
|
|
588
|
logMetacat.error(e.getClass() + ": " + e.getMessage(), e);
|
|
589
|
try {
|
|
590
|
out = response.getOutputStream();
|
|
591
|
} catch (IOException ioe) {
|
|
592
|
logMetacat.error("Could not get output stream from response", ioe);
|
|
593
|
}
|
|
594
|
ServiceFailure se = new ServiceFailure("0000", e.getMessage());
|
|
595
|
serializeException(se, out);
|
|
596
|
}
|
|
597
|
}
|
|
598
|
|
|
599
|
/**
|
|
600
|
* Handles notification of system metadata changes for the given identifier
|
|
601
|
*
|
|
602
|
* @param id the identifier for the object
|
|
603
|
* @throws InvalidToken
|
|
604
|
* @throws InvalidRequest
|
|
605
|
* @throws NotAuthorized
|
|
606
|
* @throws ServiceFailure
|
|
607
|
* @throws NotImplemented
|
|
608
|
*/
|
|
609
|
private void systemMetadataChanged()
|
|
610
|
throws NotImplemented, ServiceFailure, NotAuthorized, InvalidRequest,
|
|
611
|
InvalidToken {
|
|
612
|
|
|
613
|
long serialVersion = 0L;
|
|
614
|
String serialVersionStr = null;
|
|
615
|
Date dateSysMetaLastModified = null;
|
|
616
|
String dateSysMetaLastModifiedStr = null;
|
|
617
|
Identifier pid = null;
|
|
618
|
|
|
619
|
// mkae sure we have the multipart params
|
|
620
|
try {
|
|
621
|
initMultipartParams();
|
|
622
|
} catch (Exception e1) {
|
|
623
|
throw new ServiceFailure("1333", "Could not collect the multipart params for the request");
|
|
624
|
}
|
|
625
|
|
|
626
|
// get the pid
|
|
627
|
try {
|
|
628
|
String id = multipartparams.get("pid").get(0);
|
|
629
|
pid = new Identifier();
|
|
630
|
pid.setValue(id);
|
|
631
|
} catch (NullPointerException e) {
|
|
632
|
String msg = "The 'pid' must be provided as a parameter and was not.";
|
|
633
|
logMetacat.error(msg);
|
|
634
|
throw new InvalidRequest("1334", msg);
|
|
635
|
}
|
|
636
|
|
|
637
|
// get the serialVersion
|
|
638
|
try {
|
|
639
|
serialVersionStr = multipartparams.get("serialVersion").get(0);
|
|
640
|
serialVersion = new Long(serialVersionStr).longValue();
|
|
641
|
|
|
642
|
} catch (NullPointerException e) {
|
|
643
|
String msg = "The 'serialVersion' must be provided as a parameter and was not.";
|
|
644
|
logMetacat.error(msg);
|
|
645
|
throw new InvalidRequest("1334", msg);
|
|
646
|
|
|
647
|
}
|
|
648
|
|
|
649
|
// get the dateSysMetaLastModified
|
|
650
|
try {
|
|
651
|
dateSysMetaLastModifiedStr = multipartparams.get("dateSysMetaLastModified").get(0);
|
|
652
|
dateSysMetaLastModified = DateTimeMarshaller.deserializeDateToUTC(dateSysMetaLastModifiedStr);
|
|
653
|
|
|
654
|
} catch (NullPointerException e) {
|
|
655
|
String msg =
|
|
656
|
"The 'dateSysMetaLastModified' must be provided as a " +
|
|
657
|
"parameter and was not, or was an invalid representation of the timestamp.";
|
|
658
|
logMetacat.error(msg);
|
|
659
|
throw new InvalidRequest("1334", msg);
|
|
660
|
|
|
661
|
}
|
|
662
|
|
|
663
|
// call the service
|
|
664
|
MNodeService.getInstance(request).systemMetadataChanged(session, pid, serialVersion, dateSysMetaLastModified);
|
|
665
|
response.setStatus(200);
|
|
666
|
}
|
|
667
|
|
|
668
|
/**
|
|
669
|
* Handles identifier generation calls
|
|
670
|
*
|
|
671
|
* @throws InvalidRequest
|
|
672
|
* @throws NotImplemented
|
|
673
|
* @throws NotAuthorized
|
|
674
|
* @throws ServiceFailure
|
|
675
|
* @throws InvalidToken
|
|
676
|
* @throws IOException
|
|
677
|
* @throws JiBXException
|
|
678
|
*/
|
|
679
|
private void generateIdentifier() throws InvalidToken, ServiceFailure, NotAuthorized, NotImplemented, InvalidRequest, IOException, JiBXException {
|
|
680
|
|
|
681
|
// make sure we have the multipart params
|
|
682
|
try {
|
|
683
|
initMultipartParams();
|
|
684
|
} catch (Exception e1) {
|
|
685
|
throw new ServiceFailure("1333", "Could not collect the multipart params for the request");
|
|
686
|
}
|
|
687
|
|
|
688
|
// get the scheme
|
|
689
|
String scheme = null;
|
|
690
|
try {
|
|
691
|
scheme = multipartparams.get("scheme").get(0);
|
|
692
|
} catch (NullPointerException e) {
|
|
693
|
String msg = "The 'scheme' parameter was not provided, using default";
|
|
694
|
logMetacat.warn(msg);
|
|
695
|
}
|
|
696
|
|
|
697
|
// get the fragment
|
|
698
|
String fragment = null;
|
|
699
|
try {
|
|
700
|
fragment = multipartparams.get("fragment").get(0);
|
|
701
|
} catch (NullPointerException e) {
|
|
702
|
String msg = "The 'fragment' parameter was not provided, using default";
|
|
703
|
logMetacat.warn(msg);
|
|
704
|
}
|
|
705
|
|
|
706
|
// call the service
|
|
707
|
Identifier identifier = MNodeService.getInstance(request).generateIdentifier(session, scheme, fragment);
|
|
708
|
response.setStatus(200);
|
|
709
|
response.setContentType("text/xml");
|
|
710
|
OutputStream out = response.getOutputStream();
|
|
711
|
TypeMarshaller.marshalTypeToOutputStream(identifier, out);
|
|
712
|
}
|
|
713
|
|
|
714
|
/**
|
|
715
|
* Checks the access policy
|
|
716
|
* @param id
|
|
717
|
* @return
|
|
718
|
* @throws ServiceFailure
|
|
719
|
* @throws InvalidToken
|
|
720
|
* @throws NotFound
|
|
721
|
* @throws NotAuthorized
|
|
722
|
* @throws NotImplemented
|
|
723
|
* @throws InvalidRequest
|
|
724
|
*/
|
|
725
|
private boolean isAuthorized(String id) throws ServiceFailure, InvalidToken, NotFound, NotAuthorized, NotImplemented, InvalidRequest {
|
|
726
|
Identifier pid = new Identifier();
|
|
727
|
pid.setValue(id);
|
|
728
|
Permission permission = null;
|
|
729
|
try {
|
|
730
|
String perm = params.get("action")[0];
|
|
731
|
permission = Permission.convert(perm);
|
|
732
|
} catch (Exception e) {
|
|
733
|
logMetacat.warn("No permission specified");
|
|
734
|
}
|
|
735
|
boolean result = MNodeService.getInstance(request).isAuthorized(session, pid, permission);
|
|
736
|
response.setStatus(200);
|
|
737
|
response.setContentType("text/xml");
|
|
738
|
return result;
|
|
739
|
}
|
|
740
|
|
|
741
|
/**
|
|
742
|
* Processes failed synchronization message
|
|
743
|
* @throws NotImplemented
|
|
744
|
* @throws ServiceFailure
|
|
745
|
* @throws NotAuthorized
|
|
746
|
* @throws InvalidRequest
|
|
747
|
* @throws JiBXException
|
|
748
|
* @throws IllegalAccessException
|
|
749
|
* @throws InstantiationException
|
|
750
|
* @throws IOException
|
|
751
|
*/
|
|
752
|
private void syncError() throws NotImplemented, ServiceFailure, NotAuthorized, InvalidRequest, JiBXException, IOException, InstantiationException, IllegalAccessException {
|
|
753
|
SynchronizationFailed syncFailed = null;
|
|
754
|
try {
|
|
755
|
syncFailed = collectSynchronizationFailed();
|
|
756
|
} catch (ParserConfigurationException e) {
|
|
757
|
throw new ServiceFailure("2161", e.getMessage());
|
|
758
|
} catch (SAXException e) {
|
|
759
|
throw new ServiceFailure("2161", e.getMessage());
|
|
760
|
}
|
|
761
|
|
|
762
|
MNodeService.getInstance(request).synchronizationFailed(session, syncFailed);
|
|
763
|
}
|
|
764
|
|
|
765
|
/**
|
|
766
|
* Calculate the checksum
|
|
767
|
* @throws NotImplemented
|
|
768
|
* @throws JiBXException
|
|
769
|
* @throws IOException
|
|
770
|
* @throws InvalidToken
|
|
771
|
* @throws ServiceFailure
|
|
772
|
* @throws NotAuthorized
|
|
773
|
* @throws NotFound
|
|
774
|
* @throws InvalidRequest
|
|
775
|
*/
|
|
776
|
private void checksum(String pid) throws NotImplemented, JiBXException, IOException, InvalidToken, ServiceFailure, NotAuthorized, NotFound, InvalidRequest {
|
|
777
|
String checksumAlgorithm = "MD5";
|
|
778
|
try {
|
|
779
|
checksumAlgorithm = PropertyService.getProperty("dataone.checksumAlgorithm.default");
|
|
780
|
} catch(Exception e) {
|
|
781
|
logMetacat.warn("Could not lookup configured default checksum algorithm, using: " + checksumAlgorithm);
|
|
782
|
}
|
|
783
|
|
|
784
|
Identifier pidid = new Identifier();
|
|
785
|
pidid.setValue(pid);
|
|
786
|
try {
|
|
787
|
checksumAlgorithm = params.get("checksumAlgorithm")[0];
|
|
788
|
} catch(Exception e) {
|
|
789
|
//do nothing. use the default
|
|
790
|
logMetacat.warn("No algorithm specified, using default: " + checksumAlgorithm);
|
|
791
|
}
|
|
792
|
logMetacat.debug("getting checksum for object " + pid + " with algorithm " + checksumAlgorithm);
|
|
793
|
|
|
794
|
Checksum c = MNodeService.getInstance(request).getChecksum(session, pidid, checksumAlgorithm);
|
|
795
|
logMetacat.debug("got checksum " + c.getValue());
|
|
796
|
response.setStatus(200);
|
|
797
|
logMetacat.debug("serializing response");
|
|
798
|
TypeMarshaller.marshalTypeToOutputStream(c, response.getOutputStream());
|
|
799
|
logMetacat.debug("done serializing response.");
|
|
800
|
|
|
801
|
}
|
|
802
|
|
|
803
|
/**
|
|
804
|
* handle the replicate action for MN
|
|
805
|
* @throws JiBXException
|
|
806
|
* @throws FileUploadException
|
|
807
|
* @throws IOException
|
|
808
|
* @throws InvalidRequest
|
|
809
|
* @throws ServiceFailure
|
|
810
|
* @throws UnsupportedType
|
|
811
|
* @throws InsufficientResources
|
|
812
|
* @throws NotAuthorized
|
|
813
|
* @throws NotImplemented
|
|
814
|
* @throws IllegalAccessException
|
|
815
|
* @throws InstantiationException
|
|
816
|
* @throws InvalidToken
|
|
817
|
*/
|
|
818
|
private void replicate()
|
|
819
|
throws ServiceFailure, InvalidRequest, IOException, FileUploadException,
|
|
820
|
JiBXException, NotImplemented, NotAuthorized, InsufficientResources,
|
|
821
|
UnsupportedType, InstantiationException, IllegalAccessException, InvalidToken {
|
|
822
|
|
|
823
|
logMetacat.debug("in POST replicate()");
|
|
824
|
|
|
825
|
// somewhat unorthodox, but the call is asynchronous and we'd like to return this info sooner
|
|
826
|
boolean allowed = false;
|
|
827
|
if (session == null) {
|
|
828
|
String msg = "No session was provided.";
|
|
829
|
NotAuthorized failure = new NotAuthorized("2152", msg);
|
|
830
|
throw failure;
|
|
831
|
} else {
|
|
832
|
allowed = MNodeService.getInstance(request).isAdminAuthorized(session);
|
|
833
|
if (!allowed) {
|
|
834
|
String msg = "User is not an admin user";
|
|
835
|
NotAuthorized failure = new NotAuthorized("2152", msg);
|
|
836
|
throw failure;
|
|
837
|
}
|
|
838
|
}
|
|
839
|
|
|
840
|
// parse the systemMetadata
|
|
841
|
Map<String, File> files = collectMultipartFiles();
|
|
842
|
final SystemMetadata sysmeta = TypeMarshaller.unmarshalTypeFromFile(SystemMetadata.class, files.get("sysmeta"));
|
|
843
|
|
|
844
|
String sn = multipartparams.get("sourceNode").get(0);
|
|
845
|
logMetacat.debug("sourceNode: " + sn);
|
|
846
|
final NodeReference sourceNode = new NodeReference();
|
|
847
|
sourceNode.setValue(sn);
|
|
848
|
|
|
849
|
// run it in a thread to avoid connection timeout
|
|
850
|
Runnable runner = new Runnable() {
|
|
851
|
@Override
|
|
852
|
public void run() {
|
|
853
|
try {
|
|
854
|
MNodeService.getInstance(request).replicate(session, sysmeta, sourceNode);
|
|
855
|
} catch (Exception e) {
|
|
856
|
logMetacat.error("Error running replication: " + e.getMessage(), e);
|
|
857
|
throw new RuntimeException(e.getMessage(), e);
|
|
858
|
}
|
|
859
|
}
|
|
860
|
};
|
|
861
|
// submit the task, and that's it
|
|
862
|
executor.submit(runner);
|
|
863
|
|
|
864
|
// thread was started, so we return success
|
|
865
|
response.setStatus(200);
|
|
866
|
|
|
867
|
}
|
|
868
|
|
|
869
|
/**
|
|
870
|
* Handle the getReplica action for the MN
|
|
871
|
* @param id the identifier for the object
|
|
872
|
* @throws NotFound
|
|
873
|
* @throws ServiceFailure
|
|
874
|
* @throws NotImplemented
|
|
875
|
* @throws NotAuthorized
|
|
876
|
* @throws InvalidToken
|
|
877
|
* @throws InvalidRequest
|
|
878
|
*/
|
|
879
|
private void getReplica(String id)
|
|
880
|
throws InvalidRequest, InvalidToken, NotAuthorized, NotImplemented,
|
|
881
|
ServiceFailure, NotFound {
|
|
882
|
|
|
883
|
Identifier pid = new Identifier();
|
|
884
|
pid.setValue(id);
|
|
885
|
OutputStream out = null;
|
|
886
|
InputStream dataBytes = null;
|
|
887
|
|
|
888
|
try {
|
|
889
|
// call the service
|
|
890
|
dataBytes = MNodeService.getInstance(request).getReplica(session, pid);
|
|
891
|
|
|
892
|
response.setContentType("application/octet-stream");
|
|
893
|
response.setStatus(200);
|
|
894
|
out = response.getOutputStream();
|
|
895
|
// write the object to the output stream
|
|
896
|
IOUtils.copyLarge(dataBytes, out);
|
|
897
|
|
|
898
|
} catch (IOException e) {
|
|
899
|
String msg = "There was an error writing the output: " + e.getMessage();
|
|
900
|
logMetacat.error(msg);
|
|
901
|
throw new ServiceFailure("2181", msg);
|
|
902
|
|
|
903
|
}
|
|
904
|
|
|
905
|
}
|
|
906
|
|
|
907
|
/**
|
|
908
|
* Get the Node information
|
|
909
|
*
|
|
910
|
* @throws JiBXException
|
|
911
|
* @throws IOException
|
|
912
|
* @throws InvalidRequest
|
|
913
|
* @throws ServiceFailure
|
|
914
|
* @throws NotAuthorized
|
|
915
|
* @throws NotImplemented
|
|
916
|
*/
|
|
917
|
private void node()
|
|
918
|
throws JiBXException, IOException, NotImplemented, NotAuthorized, ServiceFailure, InvalidRequest {
|
|
919
|
|
|
920
|
Node n = MNodeService.getInstance(request).getCapabilities();
|
|
921
|
|
|
922
|
response.setContentType("text/xml");
|
|
923
|
response.setStatus(200);
|
|
924
|
TypeMarshaller.marshalTypeToOutputStream(n, response.getOutputStream());
|
|
925
|
|
|
926
|
}
|
|
927
|
|
|
928
|
/**
|
|
929
|
* MN_crud.describe()
|
|
930
|
* http://mule1.dataone.org/ArchitectureDocs/mn_api_crud.html#MN_crud.describe
|
|
931
|
* @param pid
|
|
932
|
* @throws InvalidRequest
|
|
933
|
* @throws NotImplemented
|
|
934
|
* @throws NotFound
|
|
935
|
* @throws NotAuthorized
|
|
936
|
* @throws ServiceFailure
|
|
937
|
* @throws InvalidToken
|
|
938
|
*/
|
|
939
|
private void describeObject(String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented, InvalidRequest
|
|
940
|
{
|
|
941
|
|
|
942
|
response.setContentType("text/xml");
|
|
943
|
|
|
944
|
Identifier id = new Identifier();
|
|
945
|
id.setValue(pid);
|
|
946
|
|
|
947
|
DescribeResponse dr = null;
|
|
948
|
try {
|
|
949
|
dr = MNodeService.getInstance(request).describe(session, id);
|
|
950
|
} catch (BaseException e) {
|
|
951
|
response.setStatus(e.getCode());
|
|
952
|
response.addHeader("DataONE-Exception-Name", e.getClass().getName());
|
|
953
|
response.addHeader("DataONE-Exception-DetailCode", e.getDetail_code());
|
|
954
|
response.addHeader("DataONE-Exception-Description", e.getDescription());
|
|
955
|
response.addHeader("DataONE-Exception-PID", id.getValue());
|
|
956
|
return;
|
|
957
|
}
|
|
958
|
|
|
959
|
response.setStatus(200);
|
|
960
|
|
|
961
|
//response.addHeader("pid", pid);
|
|
962
|
response.addHeader("DataONE-Checksum", dr.getDataONE_Checksum().getAlgorithm() + "," + dr.getDataONE_Checksum().getValue());
|
|
963
|
response.addHeader("Content-Length", dr.getContent_Length() + "");
|
|
964
|
response.addHeader("Last-Modified", DateTimeMarshaller.serializeDateToUTC(dr.getLast_Modified()));
|
|
965
|
response.addHeader("DataONE-ObjectFormat", dr.getDataONE_ObjectFormatIdentifier().getValue());
|
|
966
|
response.addHeader("DataONE-SerialVersion", dr.getSerialVersion().toString());
|
|
967
|
|
|
968
|
|
|
969
|
}
|
|
970
|
|
|
971
|
/**
|
|
972
|
* get the logs based on passed params. Available
|
|
973
|
* See http://mule1.dataone.org/ArchitectureDocs/mn_api_crud.html#MN_crud.getLogRecords
|
|
974
|
* for more info
|
|
975
|
* @throws NotImplemented
|
|
976
|
* @throws InvalidRequest
|
|
977
|
* @throws NotAuthorized
|
|
978
|
* @throws ServiceFailure
|
|
979
|
* @throws InvalidToken
|
|
980
|
* @throws IOException
|
|
981
|
* @throws JiBXException
|
|
982
|
*/
|
|
983
|
private void getLog() throws InvalidToken, ServiceFailure, NotAuthorized, InvalidRequest, NotImplemented, IOException, JiBXException
|
|
984
|
{
|
|
985
|
|
|
986
|
Date fromDate = null;
|
|
987
|
Date toDate = null;
|
|
988
|
String event = null;
|
|
989
|
Integer start = null;
|
|
990
|
Integer count = null;
|
|
991
|
String pidFilter = null;
|
|
992
|
|
|
993
|
try {
|
|
994
|
String fromDateS = params.get("fromDate")[0];
|
|
995
|
logMetacat.debug("param fromDateS: " + fromDateS);
|
|
996
|
fromDate = DateTimeMarshaller.deserializeDateToUTC(fromDateS);
|
|
997
|
} catch (Exception e) {
|
|
998
|
logMetacat.warn("Could not parse fromDate: " + e.getMessage());
|
|
999
|
}
|
|
1000
|
try {
|
|
1001
|
String toDateS = params.get("toDate")[0];
|
|
1002
|
logMetacat.debug("param toDateS: " + toDateS);
|
|
1003
|
toDate = DateTimeMarshaller.deserializeDateToUTC(toDateS);
|
|
1004
|
} catch (Exception e) {
|
|
1005
|
logMetacat.warn("Could not parse toDate: " + e.getMessage());
|
|
1006
|
}
|
|
1007
|
try {
|
|
1008
|
event = params.get("event")[0];
|
|
1009
|
} catch (Exception e) {
|
|
1010
|
logMetacat.warn("Could not parse event: " + e.getMessage());
|
|
1011
|
}
|
|
1012
|
logMetacat.debug("fromDate: " + fromDate + " toDate: " + toDate);
|
|
1013
|
|
|
1014
|
try {
|
|
1015
|
start = Integer.parseInt(params.get("start")[0]);
|
|
1016
|
} catch (Exception e) {
|
|
1017
|
logMetacat.warn("Could not parse start: " + e.getMessage());
|
|
1018
|
}
|
|
1019
|
try {
|
|
1020
|
count = Integer.parseInt(params.get("count")[0]);
|
|
1021
|
} catch (Exception e) {
|
|
1022
|
logMetacat.warn("Could not parse count: " + e.getMessage());
|
|
1023
|
}
|
|
1024
|
|
|
1025
|
try {
|
|
1026
|
pidFilter = params.get("pidFilter")[0];
|
|
1027
|
} catch (Exception e) {
|
|
1028
|
logMetacat.warn("Could not parse pidFilter: " + e.getMessage());
|
|
1029
|
}
|
|
1030
|
|
|
1031
|
logMetacat.debug("calling getLogRecords");
|
|
1032
|
Log log = MNodeService.getInstance(request).getLogRecords(session, fromDate, toDate, event, pidFilter, start, count);
|
|
1033
|
|
|
1034
|
OutputStream out = response.getOutputStream();
|
|
1035
|
response.setStatus(200);
|
|
1036
|
response.setContentType("text/xml");
|
|
1037
|
|
|
1038
|
TypeMarshaller.marshalTypeToOutputStream(log, out);
|
|
1039
|
|
|
1040
|
}
|
|
1041
|
|
|
1042
|
|
|
1043
|
|
|
1044
|
/**
|
|
1045
|
* Implements REST version of DataONE CRUD API --> get
|
|
1046
|
* @param pid ID of data object to be read
|
|
1047
|
* @throws NotImplemented
|
|
1048
|
* @throws InvalidRequest
|
|
1049
|
* @throws NotFound
|
|
1050
|
* @throws NotAuthorized
|
|
1051
|
* @throws ServiceFailure
|
|
1052
|
* @throws InvalidToken
|
|
1053
|
* @throws IOException
|
|
1054
|
* @throws JiBXException
|
|
1055
|
*/
|
|
1056
|
protected void getObject(String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, InvalidRequest, NotImplemented, IOException, JiBXException {
|
|
1057
|
OutputStream out = null;
|
|
1058
|
|
|
1059
|
if (pid != null) { //get a specific document
|
|
1060
|
Identifier id = new Identifier();
|
|
1061
|
id.setValue(pid);
|
|
1062
|
|
|
1063
|
SystemMetadata sm = MNodeService.getInstance(request).getSystemMetadata(session, id);
|
|
1064
|
|
|
1065
|
// set the headers for the content
|
|
1066
|
String mimeType = ObjectFormatInfo.instance().getMimeType(sm.getFormatId().getValue());
|
|
1067
|
if (mimeType == null) {
|
|
1068
|
mimeType = "application/octet-stream";
|
|
1069
|
}
|
|
1070
|
String extension = ObjectFormatInfo.instance().getExtension(sm.getFormatId().getValue());
|
|
1071
|
String filename = id.getValue();
|
|
1072
|
if (extension != null) {
|
|
1073
|
filename = id.getValue() + extension;
|
|
1074
|
}
|
|
1075
|
response.setContentType(mimeType);
|
|
1076
|
response.setHeader("Content-Disposition", "inline; filename=" + filename);
|
|
1077
|
|
|
1078
|
InputStream data = MNodeService.getInstance(request).get(session, id);
|
|
1079
|
|
|
1080
|
out = response.getOutputStream();
|
|
1081
|
IOUtils.copyLarge(data, out);
|
|
1082
|
|
|
1083
|
}
|
|
1084
|
else
|
|
1085
|
{ //call listObjects with specified params
|
|
1086
|
Date startTime = null;
|
|
1087
|
Date endTime = null;
|
|
1088
|
ObjectFormatIdentifier formatId = null;
|
|
1089
|
Identifier identifier = null;
|
|
1090
|
boolean replicaStatus = true;
|
|
1091
|
int start = 0;
|
|
1092
|
//TODO: make the max count into a const
|
|
1093
|
int count = 1000;
|
|
1094
|
Enumeration paramlist = request.getParameterNames();
|
|
1095
|
while (paramlist.hasMoreElements())
|
|
1096
|
{ //parse the params and make the crud call
|
|
1097
|
String name = (String) paramlist.nextElement();
|
|
1098
|
String[] value = (String[])request.getParameterValues(name);
|
|
1099
|
|
|
1100
|
if (name.equals("fromDate") && value != null)
|
|
1101
|
{
|
|
1102
|
try
|
|
1103
|
{
|
|
1104
|
//startTime = dateFormat.parse(value[0]);
|
|
1105
|
startTime = DateTimeMarshaller.deserializeDateToUTC(value[0]);
|
|
1106
|
//startTime = parseDateAndConvertToGMT(value[0]);
|
|
1107
|
}
|
|
1108
|
catch(Exception e)
|
|
1109
|
{ //if we can't parse it, just don't use the fromDate param
|
|
1110
|
logMetacat.warn("Could not parse fromDate: " + value[0]);
|
|
1111
|
startTime = null;
|
|
1112
|
}
|
|
1113
|
}
|
|
1114
|
else if(name.equals("toDate") && value != null)
|
|
1115
|
{
|
|
1116
|
try
|
|
1117
|
{
|
|
1118
|
endTime = DateTimeMarshaller.deserializeDateToUTC(value[0]);
|
|
1119
|
}
|
|
1120
|
catch(Exception e)
|
|
1121
|
{ //if we can't parse it, just don't use the toDate param
|
|
1122
|
logMetacat.warn("Could not parse toDate: " + value[0]);
|
|
1123
|
endTime = null;
|
|
1124
|
}
|
|
1125
|
}
|
|
1126
|
else if(name.equals("formatId") && value != null)
|
|
1127
|
{
|
|
1128
|
formatId = new ObjectFormatIdentifier();
|
|
1129
|
formatId.setValue(value[0]);
|
|
1130
|
}
|
|
1131
|
else if(name.equals("identifier") && value != null)
|
|
1132
|
{
|
|
1133
|
identifier = new Identifier();
|
|
1134
|
identifier.setValue(value[0]);
|
|
1135
|
}
|
|
1136
|
else if(name.equals("replicaStatus") && value != null)
|
|
1137
|
{
|
|
1138
|
if(value != null &&
|
|
1139
|
value.length > 0 &&
|
|
1140
|
(value[0].equalsIgnoreCase("false") || value[0].equalsIgnoreCase("no")))
|
|
1141
|
{
|
|
1142
|
replicaStatus = false;
|
|
1143
|
}
|
|
1144
|
}
|
|
1145
|
else if(name.equals("start") && value != null)
|
|
1146
|
{
|
|
1147
|
start = new Integer(value[0]).intValue();
|
|
1148
|
}
|
|
1149
|
else if(name.equals("count") && value != null)
|
|
1150
|
{
|
|
1151
|
count = new Integer(value[0]).intValue();
|
|
1152
|
}
|
|
1153
|
}
|
|
1154
|
//make the crud call
|
|
1155
|
logMetacat.debug("session: " + session + " startTime: " + startTime +
|
|
1156
|
" endTime: " + endTime + " formatId: " +
|
|
1157
|
formatId + " replicaStatus: " + replicaStatus +
|
|
1158
|
" start: " + start + " count: " + count);
|
|
1159
|
|
|
1160
|
ObjectList ol =
|
|
1161
|
MNodeService.getInstance(request).listObjects(session, startTime, endTime,
|
|
1162
|
formatId, identifier, replicaStatus, start, count);
|
|
1163
|
|
|
1164
|
out = response.getOutputStream();
|
|
1165
|
response.setStatus(200);
|
|
1166
|
response.setContentType("text/xml");
|
|
1167
|
// Serialize and write it to the output stream
|
|
1168
|
TypeMarshaller.marshalTypeToOutputStream(ol, out);
|
|
1169
|
|
|
1170
|
}
|
|
1171
|
|
|
1172
|
}
|
|
1173
|
|
|
1174
|
|
|
1175
|
/**
|
|
1176
|
* Retrieve data package as Bagit zip
|
|
1177
|
* @param pid
|
|
1178
|
* @throws NotImplemented
|
|
1179
|
* @throws NotFound
|
|
1180
|
* @throws NotAuthorized
|
|
1181
|
* @throws ServiceFailure
|
|
1182
|
* @throws InvalidToken
|
|
1183
|
* @throws IOException
|
|
1184
|
* @throws InvalidRequest
|
|
1185
|
*/
|
|
1186
|
protected void getPackage(String format, String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented, IOException, InvalidRequest {
|
|
1187
|
|
|
1188
|
Identifier id = new Identifier();
|
|
1189
|
id.setValue(pid);
|
|
1190
|
ObjectFormatIdentifier formatId = null;
|
|
1191
|
if (format != null) {
|
|
1192
|
formatId = new ObjectFormatIdentifier();
|
|
1193
|
formatId.setValue(format);
|
|
1194
|
}
|
|
1195
|
InputStream is = MNodeService.getInstance(request).getPackage(session, formatId , id);
|
|
1196
|
|
|
1197
|
// use the provided filename
|
|
1198
|
String filename = null;
|
|
1199
|
if (is instanceof DeleteOnCloseFileInputStream) {
|
|
1200
|
filename = ((DeleteOnCloseFileInputStream)is).getFile().getName();
|
|
1201
|
} else {
|
|
1202
|
filename = "dataPackage-" + System.currentTimeMillis() + ".zip";
|
|
1203
|
}
|
|
1204
|
response.setHeader("Content-Disposition", "inline; filename=" + filename);
|
|
1205
|
response.setContentType("application/zip");
|
|
1206
|
response.setStatus(200);
|
|
1207
|
OutputStream out = response.getOutputStream();
|
|
1208
|
|
|
1209
|
// write it to the output stream
|
|
1210
|
IOUtils.copyLarge(is, out);
|
|
1211
|
}
|
|
1212
|
|
|
1213
|
protected void publish(String pid) throws InvalidToken, ServiceFailure,
|
|
1214
|
NotAuthorized, NotFound, NotImplemented, IOException,
|
|
1215
|
JiBXException, InvalidRequest, IdentifierNotUnique,
|
|
1216
|
UnsupportedType, InsufficientResources, InvalidSystemMetadata {
|
|
1217
|
|
|
1218
|
// publish the object
|
|
1219
|
Identifier originalIdentifier = new Identifier();
|
|
1220
|
originalIdentifier.setValue(pid);
|
|
1221
|
Identifier newIdentifier = MNodeService.getInstance(request).publish(session, originalIdentifier);
|
|
1222
|
|
|
1223
|
response.setStatus(200);
|
|
1224
|
response.setContentType("text/xml");
|
|
1225
|
OutputStream out = response.getOutputStream();
|
|
1226
|
|
|
1227
|
// write new identifier to the output stream
|
|
1228
|
TypeMarshaller.marshalTypeToOutputStream(newIdentifier, out);
|
|
1229
|
}
|
|
1230
|
|
|
1231
|
/**
|
|
1232
|
* Retrieve System Metadata
|
|
1233
|
* @param pid
|
|
1234
|
* @throws InvalidToken
|
|
1235
|
* @throws ServiceFailure
|
|
1236
|
* @throws NotAuthorized
|
|
1237
|
* @throws NotFound
|
|
1238
|
* @throws InvalidRequest
|
|
1239
|
* @throws NotImplemented
|
|
1240
|
* @throws IOException
|
|
1241
|
* @throws JiBXException
|
|
1242
|
*/
|
|
1243
|
protected void getSystemMetadataObject(String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, InvalidRequest, NotImplemented, IOException, JiBXException {
|
|
1244
|
|
|
1245
|
Identifier id = new Identifier();
|
|
1246
|
id.setValue(pid);
|
|
1247
|
SystemMetadata sysmeta = MNodeService.getInstance(request).getSystemMetadata(session, id);
|
|
1248
|
|
|
1249
|
response.setContentType("text/xml");
|
|
1250
|
response.setStatus(200);
|
|
1251
|
OutputStream out = response.getOutputStream();
|
|
1252
|
|
|
1253
|
// Serialize and write it to the output stream
|
|
1254
|
TypeMarshaller.marshalTypeToOutputStream(sysmeta, out);
|
|
1255
|
}
|
|
1256
|
|
|
1257
|
|
|
1258
|
/**
|
|
1259
|
* Inserts or updates the object
|
|
1260
|
*
|
|
1261
|
* @param pid - ID of data object to be inserted or updated. If action is update, the pid
|
|
1262
|
* is the existing pid. If insert, the pid is the new one
|
|
1263
|
* @throws InvalidRequest
|
|
1264
|
* @throws ServiceFailure
|
|
1265
|
* @throws JiBXException
|
|
1266
|
* @throws NotImplemented
|
|
1267
|
* @throws InvalidSystemMetadata
|
|
1268
|
* @throws InsufficientResources
|
|
1269
|
* @throws UnsupportedType
|
|
1270
|
* @throws IdentifierNotUnique
|
|
1271
|
* @throws NotAuthorized
|
|
1272
|
* @throws InvalidToken
|
|
1273
|
* @throws NotFound
|
|
1274
|
* @throws IOException
|
|
1275
|
* @throws IllegalAccessException
|
|
1276
|
* @throws InstantiationException
|
|
1277
|
*/
|
|
1278
|
protected void putObject(String trailingPid, String action) throws ServiceFailure, InvalidRequest, JiBXException, InvalidToken, NotAuthorized, IdentifierNotUnique, UnsupportedType, InsufficientResources, InvalidSystemMetadata, NotImplemented, NotFound, IOException, InstantiationException, IllegalAccessException {
|
|
1279
|
|
|
1280
|
// Read the incoming data from its Mime Multipart encoding
|
|
1281
|
Map<String, File> files = collectMultipartFiles();
|
|
1282
|
|
|
1283
|
Identifier pid = new Identifier();
|
|
1284
|
if (trailingPid == null) {
|
|
1285
|
// get the pid string from the body and set the value
|
|
1286
|
String pidString = multipartparams.get("pid").get(0);
|
|
1287
|
if (pidString != null) {
|
|
1288
|
pid.setValue(pidString);
|
|
1289
|
|
|
1290
|
} else {
|
|
1291
|
throw new InvalidRequest("1102", "The pid param must be included and contain the identifier.");
|
|
1292
|
|
|
1293
|
}
|
|
1294
|
} else {
|
|
1295
|
// use the pid included in the URL
|
|
1296
|
pid.setValue(trailingPid);
|
|
1297
|
}
|
|
1298
|
logMetacat.debug("putObject with pid " + pid.getValue());
|
|
1299
|
logMetacat.debug("Entering putObject: " + pid.getValue() + "/" + action);
|
|
1300
|
|
|
1301
|
InputStream object = null;
|
|
1302
|
InputStream sysmeta = null;
|
|
1303
|
File smFile = files.get("sysmeta");
|
|
1304
|
sysmeta = new FileInputStream(smFile);
|
|
1305
|
File objFile = files.get("object");
|
|
1306
|
object = new FileInputStream(objFile);
|
|
1307
|
|
|
1308
|
// ensure we have the object bytes
|
|
1309
|
if ( objFile == null ) {
|
|
1310
|
throw new InvalidRequest("1102", "The object param must contain the object bytes.");
|
|
1311
|
|
|
1312
|
}
|
|
1313
|
|
|
1314
|
// ensure we have the system metadata
|
|
1315
|
if ( smFile == null ) {
|
|
1316
|
throw new InvalidRequest("1102", "The sysmeta param must contain the system metadata document.");
|
|
1317
|
|
|
1318
|
}
|
|
1319
|
|
|
1320
|
response.setStatus(200);
|
|
1321
|
response.setContentType("text/xml");
|
|
1322
|
OutputStream out = response.getOutputStream();
|
|
1323
|
|
|
1324
|
if (action.equals(FUNCTION_NAME_INSERT)) {
|
|
1325
|
// handle inserts
|
|
1326
|
logMetacat.debug("Commence creation...");
|
|
1327
|
SystemMetadata smd = TypeMarshaller.unmarshalTypeFromStream(SystemMetadata.class, sysmeta);
|
|
1328
|
|
|
1329
|
logMetacat.debug("creating object with pid " + pid.getValue());
|
|
1330
|
Identifier rId = MNodeService.getInstance(request).create(session, pid, object, smd);
|
|
1331
|
TypeMarshaller.marshalTypeToOutputStream(rId, out);
|
|
1332
|
|
|
1333
|
} else if (action.equals(FUNCTION_NAME_UPDATE)) {
|
|
1334
|
// handle updates
|
|
1335
|
|
|
1336
|
// construct pids
|
|
1337
|
Identifier newPid = null;
|
|
1338
|
try {
|
|
1339
|
String newPidString = multipartparams.get("newPid").get(0);
|
|
1340
|
newPid = new Identifier();
|
|
1341
|
newPid.setValue(newPidString);
|
|
1342
|
} catch (Exception e) {
|
|
1343
|
logMetacat.error("Could not get newPid from request");
|
|
1344
|
}
|
|
1345
|
logMetacat.debug("Commence update...");
|
|
1346
|
|
|
1347
|
// get the systemmetadata object
|
|
1348
|
SystemMetadata smd = TypeMarshaller.unmarshalTypeFromStream(SystemMetadata.class, sysmeta);
|
|
1349
|
|
|
1350
|
Identifier rId = MNodeService.getInstance(request).update(session, pid, object, newPid, smd);
|
|
1351
|
TypeMarshaller.marshalTypeToOutputStream(rId, out);
|
|
1352
|
} else {
|
|
1353
|
throw new InvalidRequest("1000", "Operation must be create or update.");
|
|
1354
|
}
|
|
1355
|
|
|
1356
|
}
|
|
1357
|
|
|
1358
|
/**
|
|
1359
|
* Handle delete
|
|
1360
|
* @param pid ID of data object to be deleted
|
|
1361
|
* @throws IOException
|
|
1362
|
* @throws InvalidRequest
|
|
1363
|
* @throws NotImplemented
|
|
1364
|
* @throws NotFound
|
|
1365
|
* @throws NotAuthorized
|
|
1366
|
* @throws ServiceFailure
|
|
1367
|
* @throws InvalidToken
|
|
1368
|
* @throws JiBXException
|
|
1369
|
*/
|
|
1370
|
private void deleteObject(String pid) throws IOException, InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented, InvalidRequest, JiBXException
|
|
1371
|
{
|
|
1372
|
|
|
1373
|
OutputStream out = response.getOutputStream();
|
|
1374
|
response.setStatus(200);
|
|
1375
|
response.setContentType("text/xml");
|
|
1376
|
|
|
1377
|
Identifier id = new Identifier();
|
|
1378
|
id.setValue(pid);
|
|
1379
|
|
|
1380
|
logMetacat.debug("Calling delete");
|
|
1381
|
MNodeService.getInstance(request).delete(session, id);
|
|
1382
|
TypeMarshaller.marshalTypeToOutputStream(id, out);
|
|
1383
|
|
|
1384
|
}
|
|
1385
|
|
|
1386
|
/**
|
|
1387
|
* Archives the given pid
|
|
1388
|
* @param pid
|
|
1389
|
* @throws InvalidToken
|
|
1390
|
* @throws ServiceFailure
|
|
1391
|
* @throws NotAuthorized
|
|
1392
|
* @throws NotFound
|
|
1393
|
* @throws NotImplemented
|
|
1394
|
* @throws IOException
|
|
1395
|
* @throws JiBXException
|
|
1396
|
*/
|
|
1397
|
private void archive(String pid) throws InvalidToken, ServiceFailure, NotAuthorized, NotFound, NotImplemented, IOException, JiBXException {
|
|
1398
|
|
|
1399
|
OutputStream out = response.getOutputStream();
|
|
1400
|
response.setStatus(200);
|
|
1401
|
response.setContentType("text/xml");
|
|
1402
|
|
|
1403
|
Identifier id = new Identifier();
|
|
1404
|
id.setValue(pid);
|
|
1405
|
|
|
1406
|
logMetacat.debug("Calling archive");
|
|
1407
|
MNodeService.getInstance(request).archive(session, id);
|
|
1408
|
|
|
1409
|
TypeMarshaller.marshalTypeToOutputStream(id, out);
|
|
1410
|
|
|
1411
|
}
|
|
1412
|
|
|
1413
|
protected SynchronizationFailed collectSynchronizationFailed() throws IOException, ServiceFailure, InvalidRequest, JiBXException, InstantiationException, IllegalAccessException, ParserConfigurationException, SAXException {
|
|
1414
|
|
|
1415
|
// Read the incoming data from its Mime Multipart encoding
|
|
1416
|
logMetacat.debug("Disassembling MIME multipart form");
|
|
1417
|
InputStream sf = null;
|
|
1418
|
|
|
1419
|
// handle MMP inputs
|
|
1420
|
File tmpDir = getTempDirectory();
|
|
1421
|
logMetacat.debug("temp dir: " + tmpDir.getAbsolutePath());
|
|
1422
|
MultipartRequestResolver mrr =
|
|
1423
|
new MultipartRequestResolver(tmpDir.getAbsolutePath(), 1000000000, 0);
|
|
1424
|
MultipartRequest mr = null;
|
|
1425
|
try {
|
|
1426
|
mr = mrr.resolveMultipart(request);
|
|
1427
|
} catch (Exception e) {
|
|
1428
|
throw new ServiceFailure("2161",
|
|
1429
|
"Could not resolve multipart: " + e.getMessage());
|
|
1430
|
}
|
|
1431
|
logMetacat.debug("resolved multipart request");
|
|
1432
|
Map<String, File> files = mr.getMultipartFiles();
|
|
1433
|
if (files == null || files.keySet() == null) {
|
|
1434
|
throw new InvalidRequest("2163",
|
|
1435
|
"must have multipart file with name 'message'");
|
|
1436
|
}
|
|
1437
|
logMetacat.debug("got multipart files");
|
|
1438
|
|
|
1439
|
multipartparams = mr.getMultipartParameters();
|
|
1440
|
|
|
1441
|
File sfFile = files.get("message");
|
|
1442
|
if (sfFile == null) {
|
|
1443
|
throw new InvalidRequest("2163",
|
|
1444
|
"Missing the required file-part 'message' from the multipart request.");
|
|
1445
|
}
|
|
1446
|
logMetacat.debug("sfFile: " + sfFile.getAbsolutePath());
|
|
1447
|
sf = new FileInputStream(sfFile);
|
|
1448
|
|
|
1449
|
SynchronizationFailed syncFailed = (SynchronizationFailed) ExceptionHandler.deserializeXml(sf, "Error deserializing exception");
|
|
1450
|
return syncFailed;
|
|
1451
|
}
|
|
1452
|
|
|
1453
|
}
|