1
|
/**
|
2
|
* Copyright (C) 2007 EDIT
|
3
|
* European Distributed Institute of Taxonomy
|
4
|
* http://www.e-taxonomy.eu
|
5
|
*
|
6
|
* The contents of this file are subject to the Mozilla Public License Version 1.1
|
7
|
* See LICENSE.TXT at the top of this package for the full license terms.
|
8
|
*/
|
9
|
|
10
|
package eu.etaxonomy.cdm.model.reference;
|
11
|
|
12
|
import java.beans.PropertyChangeEvent;
|
13
|
import java.beans.PropertyChangeListener;
|
14
|
import java.net.URI;
|
15
|
import java.util.List;
|
16
|
|
17
|
import javax.persistence.Column;
|
18
|
import javax.persistence.Embedded;
|
19
|
import javax.persistence.Entity;
|
20
|
import javax.persistence.FetchType;
|
21
|
import javax.persistence.Inheritance;
|
22
|
import javax.persistence.InheritanceType;
|
23
|
import javax.persistence.Lob;
|
24
|
import javax.persistence.ManyToOne;
|
25
|
import javax.persistence.Transient;
|
26
|
import javax.validation.constraints.NotNull;
|
27
|
import javax.validation.constraints.Pattern;
|
28
|
import javax.xml.bind.annotation.XmlAccessType;
|
29
|
import javax.xml.bind.annotation.XmlAccessorType;
|
30
|
import javax.xml.bind.annotation.XmlAttribute;
|
31
|
import javax.xml.bind.annotation.XmlElement;
|
32
|
import javax.xml.bind.annotation.XmlIDREF;
|
33
|
import javax.xml.bind.annotation.XmlRootElement;
|
34
|
import javax.xml.bind.annotation.XmlSchemaType;
|
35
|
import javax.xml.bind.annotation.XmlType;
|
36
|
|
37
|
import org.apache.commons.lang.StringUtils;
|
38
|
import org.apache.log4j.Logger;
|
39
|
import org.hibernate.annotations.Cascade;
|
40
|
import org.hibernate.annotations.CascadeType;
|
41
|
import org.hibernate.annotations.Table;
|
42
|
import org.hibernate.annotations.Type;
|
43
|
import org.hibernate.envers.Audited;
|
44
|
import org.hibernate.search.annotations.Analyze;
|
45
|
import org.hibernate.search.annotations.Field;
|
46
|
import org.hibernate.search.annotations.FieldBridge;
|
47
|
import org.hibernate.search.annotations.IndexedEmbedded;
|
48
|
|
49
|
import eu.etaxonomy.cdm.common.DOI;
|
50
|
import eu.etaxonomy.cdm.hibernate.search.DoiBridge;
|
51
|
import eu.etaxonomy.cdm.model.agent.Institution;
|
52
|
import eu.etaxonomy.cdm.model.agent.TeamOrPersonBase;
|
53
|
import eu.etaxonomy.cdm.model.common.TimePeriod;
|
54
|
import eu.etaxonomy.cdm.model.media.IdentifiableMediaEntity;
|
55
|
import eu.etaxonomy.cdm.model.name.TaxonNameBase;
|
56
|
import eu.etaxonomy.cdm.strategy.cache.reference.INomenclaturalReferenceCacheStrategy;
|
57
|
import eu.etaxonomy.cdm.strategy.cache.reference.IReferenceCacheStrategy;
|
58
|
import eu.etaxonomy.cdm.strategy.cache.reference.NewDefaultReferenceCacheStrategy;
|
59
|
import eu.etaxonomy.cdm.strategy.cache.reference.old.ArticleDefaultCacheStrategy;
|
60
|
import eu.etaxonomy.cdm.strategy.cache.reference.old.BookDefaultCacheStrategy;
|
61
|
import eu.etaxonomy.cdm.strategy.cache.reference.old.BookSectionDefaultCacheStrategy;
|
62
|
import eu.etaxonomy.cdm.strategy.cache.reference.old.GenericDefaultCacheStrategy;
|
63
|
import eu.etaxonomy.cdm.strategy.cache.reference.old.JournalDefaultCacheStrategy;
|
64
|
import eu.etaxonomy.cdm.strategy.cache.reference.old.ReferenceDefaultCacheStrategy;
|
65
|
import eu.etaxonomy.cdm.strategy.match.Match;
|
66
|
import eu.etaxonomy.cdm.strategy.match.MatchMode;
|
67
|
import eu.etaxonomy.cdm.strategy.merge.Merge;
|
68
|
import eu.etaxonomy.cdm.strategy.merge.MergeMode;
|
69
|
import eu.etaxonomy.cdm.strategy.parser.ParserProblem;
|
70
|
import eu.etaxonomy.cdm.validation.Level2;
|
71
|
import eu.etaxonomy.cdm.validation.Level3;
|
72
|
import eu.etaxonomy.cdm.validation.annotation.InReference;
|
73
|
import eu.etaxonomy.cdm.validation.annotation.NoRecursiveInReference;
|
74
|
import eu.etaxonomy.cdm.validation.annotation.NullOrNotEmpty;
|
75
|
import eu.etaxonomy.cdm.validation.annotation.ReferenceCheck;
|
76
|
|
77
|
/**
|
78
|
* The upmost (abstract) class for references (information sources).
|
79
|
* <P>
|
80
|
* This class corresponds to: <ul>
|
81
|
* <li> PublicationCitation according to the TDWG ontology
|
82
|
* <li> Publication according to the TCS
|
83
|
* <li> Reference according to the ABCD schema
|
84
|
* </ul>
|
85
|
*
|
86
|
* @author m.doering
|
87
|
* @created 08-Nov-2007 13:06:47
|
88
|
*/
|
89
|
@XmlAccessorType(XmlAccessType.FIELD)
|
90
|
@XmlType(name = "Reference", propOrder = {
|
91
|
"type",
|
92
|
"uri",
|
93
|
"abbrevTitleCache",
|
94
|
"protectedAbbrevTitleCache",
|
95
|
"nomenclaturallyRelevant",
|
96
|
"authorship",
|
97
|
"referenceAbstract",
|
98
|
"title",
|
99
|
"abbrevTitle",
|
100
|
"editor",
|
101
|
"volume",
|
102
|
"pages",
|
103
|
"edition",
|
104
|
"isbn",
|
105
|
"issn",
|
106
|
"doi",
|
107
|
"seriesPart",
|
108
|
"datePublished",
|
109
|
"publisher",
|
110
|
"placePublished",
|
111
|
"institution",
|
112
|
"school",
|
113
|
"organization",
|
114
|
"inReference"
|
115
|
})
|
116
|
@XmlRootElement(name = "Reference")
|
117
|
@Entity
|
118
|
@Inheritance(strategy=InheritanceType.SINGLE_TABLE)
|
119
|
@Audited
|
120
|
@Table(appliesTo="Reference", indexes = { @org.hibernate.annotations.Index(name = "ReferenceTitleCacheIndex", columnNames = { "titleCache" }) })
|
121
|
//@InReference(groups=Level3.class)
|
122
|
@ReferenceCheck(groups=Level2.class)
|
123
|
@InReference(groups=Level3.class)
|
124
|
@NoRecursiveInReference(groups=Level3.class) //may become Level1 in future #
|
125
|
public class Reference
|
126
|
// <S extends IReferenceBaseCacheStrategy>
|
127
|
extends IdentifiableMediaEntity<IReferenceCacheStrategy>
|
128
|
implements INomenclaturalReference, IArticle, IBook, IPatent, IDatabase, IJournal, IBookSection,ICdDvd,IGeneric,IInProceedings, IProceedings, IPrintSeries, IReport, IThesis,IWebPage, IPersonalCommunication, IReference, Cloneable {
|
129
|
|
130
|
private static final long serialVersionUID = -2034764545042691295L;
|
131
|
private static final Logger logger = Logger.getLogger(Reference.class);
|
132
|
|
133
|
@XmlAttribute(name ="type")
|
134
|
@Column(name="refType")
|
135
|
@NotNull
|
136
|
@Type(type = "eu.etaxonomy.cdm.hibernate.EnumUserType",
|
137
|
parameters = {@org.hibernate.annotations.Parameter(name = "enumClass", value = "eu.etaxonomy.cdm.model.reference.ReferenceType")}
|
138
|
)
|
139
|
@Audited
|
140
|
protected ReferenceType type;
|
141
|
|
142
|
//Title of the reference
|
143
|
@XmlElement(name ="Title" )
|
144
|
@Column(length=4096, name="title")
|
145
|
@Lob
|
146
|
@Field
|
147
|
@Match(MatchMode.EQUAL_REQUIRED)
|
148
|
//TODO Val #3379
|
149
|
// @NullOrNotEmpty
|
150
|
private String title;
|
151
|
|
152
|
//Title of the reference
|
153
|
@XmlElement(name ="AbbrevTitle" )
|
154
|
@Field
|
155
|
@Match(MatchMode.EQUAL) //TODO check if this is correct
|
156
|
@NullOrNotEmpty
|
157
|
@Column(length=255)
|
158
|
private String abbrevTitle;
|
159
|
|
160
|
//Title of the reference
|
161
|
@XmlElement(name ="AbbrevTitleCache" )
|
162
|
@Field
|
163
|
@Match(MatchMode.CACHE)
|
164
|
//TODO Val #3379
|
165
|
// @NotNull
|
166
|
@Column(length=1024)
|
167
|
private String abbrevTitleCache;
|
168
|
|
169
|
@XmlElement(name = "protectedAbbrevTitleCache")
|
170
|
@Merge(MergeMode.OR)
|
171
|
private boolean protectedAbbrevTitleCache;
|
172
|
|
173
|
//********************************************************/
|
174
|
|
175
|
|
176
|
@XmlElement(name = "Editor")
|
177
|
@Field
|
178
|
//TODO Val #3379
|
179
|
// @NullOrNotEmpty
|
180
|
@Column(length=255)
|
181
|
protected String editor;
|
182
|
|
183
|
@XmlElement(name = "Volume")
|
184
|
@Field
|
185
|
//TODO Val #3379
|
186
|
// @NullOrNotEmpty
|
187
|
@Column(length=255)
|
188
|
protected String volume;
|
189
|
|
190
|
@XmlElement(name = "Pages")
|
191
|
@Field
|
192
|
//TODO Val #3379
|
193
|
// @NullOrNotEmpty
|
194
|
@Column(length=255)
|
195
|
protected String pages;
|
196
|
|
197
|
@XmlElement(name = "Edition")
|
198
|
@Field
|
199
|
//TODO Val #3379
|
200
|
// @NullOrNotEmpty
|
201
|
@Column(length=255)
|
202
|
protected String edition;
|
203
|
|
204
|
@XmlElement(name = "ISBN")
|
205
|
@Field
|
206
|
//TODO Val #3379
|
207
|
// @NullOrNotEmpty
|
208
|
@Column(length=255)
|
209
|
@Pattern(regexp = "(?=.{13}$)\\d{1,5}([- ])\\d{1,7}\\1\\d{1,6}\\1(\\d|X)$", groups = Level2.class, message = "{eu.etaxonomy.cdm.model.reference.Reference.isbn.message}")
|
210
|
protected String isbn;
|
211
|
|
212
|
@XmlElement(name = "Doi")
|
213
|
@Field
|
214
|
@FieldBridge(impl = DoiBridge.class)
|
215
|
@Type(type="doiUserType")
|
216
|
@Column(length=DOI.MAX_LENGTH)
|
217
|
protected DOI doi;
|
218
|
|
219
|
|
220
|
@XmlElement(name = "ISSN")
|
221
|
@Field
|
222
|
//TODO Val #3379
|
223
|
// @NullOrNotEmpty
|
224
|
@Column(length=255)
|
225
|
@Pattern(regexp = "(?=.{9}$)\\d{4}([- ])\\d{4} (\\d|X)$", groups = Level2.class, message = "{eu.etaxonomy.cdm.model.reference.Reference.issn.message}")
|
226
|
protected String issn;
|
227
|
|
228
|
@XmlElement(name = "SeriesPart")
|
229
|
@Field
|
230
|
//TODO Val #3379
|
231
|
// @NullOrNotEmpty
|
232
|
@Column(length=255)
|
233
|
protected String seriesPart;
|
234
|
|
235
|
@XmlElement(name = "Organization")
|
236
|
@Field
|
237
|
//TODO Val #3379
|
238
|
// @NullOrNotEmpty
|
239
|
@Column(length=255)
|
240
|
protected String organization;
|
241
|
|
242
|
@XmlElement(name = "Publisher")
|
243
|
@Field
|
244
|
//TODO Val #3379
|
245
|
// @NullOrNotEmpty
|
246
|
@Column(length=255)
|
247
|
protected String publisher;
|
248
|
|
249
|
|
250
|
@XmlElement(name = "PlacePublished")
|
251
|
@Field
|
252
|
//TODO Val #3379
|
253
|
// @NullOrNotEmpty
|
254
|
@Column(length=255)
|
255
|
protected String placePublished;
|
256
|
|
257
|
@XmlElement(name = "Institution")
|
258
|
@XmlIDREF
|
259
|
@XmlSchemaType(name = "IDREF")
|
260
|
@ManyToOne(fetch = FetchType.LAZY)
|
261
|
@IndexedEmbedded
|
262
|
@Cascade({CascadeType.SAVE_UPDATE,CascadeType.MERGE})
|
263
|
protected Institution institution;
|
264
|
|
265
|
@XmlElement(name = "School")
|
266
|
@XmlIDREF
|
267
|
@XmlSchemaType(name = "IDREF")
|
268
|
@ManyToOne(fetch = FetchType.LAZY)
|
269
|
@IndexedEmbedded
|
270
|
@Cascade({CascadeType.SAVE_UPDATE,CascadeType.MERGE})
|
271
|
protected Institution school;
|
272
|
|
273
|
@XmlElement(name = "InReference")
|
274
|
@XmlIDREF
|
275
|
@XmlSchemaType(name = "IDREF")
|
276
|
@ManyToOne(fetch = FetchType.LAZY)
|
277
|
// @IndexedEmbedded
|
278
|
@Cascade({CascadeType.SAVE_UPDATE,CascadeType.MERGE})
|
279
|
// @InReference(groups=Level2.class)
|
280
|
protected Reference inReference;
|
281
|
|
282
|
//********************************************************/
|
283
|
|
284
|
//The date range assigned to the reference. ISO Date range like. Flexible, year can be left out, etc
|
285
|
@XmlElement(name ="DatePublished" )
|
286
|
@Embedded
|
287
|
@IndexedEmbedded
|
288
|
private TimePeriod datePublished = TimePeriod.NewInstance();
|
289
|
|
290
|
@XmlElement(name ="Abstract" )
|
291
|
@Column(length=65536, name="referenceAbstract")
|
292
|
@Lob
|
293
|
@Field
|
294
|
//TODO Val #3379
|
295
|
// @NullOrNotEmpty
|
296
|
private String referenceAbstract; //abstract is a reserved term in Java
|
297
|
|
298
|
|
299
|
//URIs like DOIs, LSIDs or Handles for this reference
|
300
|
@XmlElement(name = "URI")
|
301
|
@Field(analyze = Analyze.NO)
|
302
|
@Type(type="uriUserType")
|
303
|
private URI uri;
|
304
|
|
305
|
//flag to subselect only references that could be useful for nomenclatural citations. If a reference is used as a
|
306
|
//nomenclatural reference in a name this flag should be automatically set
|
307
|
@XmlElement(name = "IsNomenclaturallyRelevant")
|
308
|
@Merge(MergeMode.OR)
|
309
|
private boolean nomenclaturallyRelevant;
|
310
|
|
311
|
@XmlElement(name = "Authorship")
|
312
|
@XmlIDREF
|
313
|
@XmlSchemaType(name = "IDREF")
|
314
|
@ManyToOne(fetch = FetchType.LAZY)
|
315
|
@IndexedEmbedded
|
316
|
@Cascade({CascadeType.SAVE_UPDATE,CascadeType.MERGE})
|
317
|
private TeamOrPersonBase<?> authorship;
|
318
|
|
319
|
@XmlAttribute
|
320
|
@Match(MatchMode.IGNORE)
|
321
|
private int parsingProblem = 0;
|
322
|
|
323
|
@XmlAttribute
|
324
|
@Match(MatchMode.IGNORE)
|
325
|
private int problemStarts = -1;
|
326
|
|
327
|
@XmlAttribute
|
328
|
@Match(MatchMode.IGNORE)
|
329
|
private int problemEnds = -1;
|
330
|
|
331
|
@Transient
|
332
|
@XmlAttribute
|
333
|
@Match(MatchMode.IGNORE)
|
334
|
private boolean cacheStrategyRectified = false;
|
335
|
|
336
|
protected Reference(){
|
337
|
this(ReferenceType.Generic); //just in case someone uses constructor
|
338
|
}
|
339
|
|
340
|
protected Reference(ReferenceType type) {
|
341
|
super();
|
342
|
if (type == null){
|
343
|
this.type = ReferenceType.Generic;
|
344
|
} else{
|
345
|
this.type = type;
|
346
|
}
|
347
|
this.setCacheStrategy(NewDefaultReferenceCacheStrategy.NewInstance());
|
348
|
}
|
349
|
|
350
|
@Override
|
351
|
public void initListener(){
|
352
|
PropertyChangeListener listener = new PropertyChangeListener() {
|
353
|
@Override
|
354
|
public void propertyChange(PropertyChangeEvent ev) {
|
355
|
if (!ev.getPropertyName().equals("titleCache") && !ev.getPropertyName().equals("abbrevTitleCache") && !ev.getPropertyName().equals("cacheStrategy")){
|
356
|
if (! isProtectedTitleCache()){
|
357
|
titleCache = null;
|
358
|
}
|
359
|
if (! isProtectedAbbrevTitleCache()){
|
360
|
abbrevTitleCache = null;
|
361
|
}
|
362
|
}
|
363
|
}
|
364
|
};
|
365
|
addPropertyChangeListener(listener);
|
366
|
}
|
367
|
|
368
|
|
369
|
//*************************** GETTER / SETTER ******************************************/
|
370
|
|
371
|
|
372
|
@Override
|
373
|
public String getAbbrevTitleCache() {
|
374
|
if (protectedAbbrevTitleCache){
|
375
|
return this.abbrevTitleCache;
|
376
|
}
|
377
|
// is title dirty, i.e. equal NULL?
|
378
|
if (abbrevTitleCache == null){
|
379
|
this.abbrevTitleCache = generateAbbrevTitle();
|
380
|
this.abbrevTitleCache = getTruncatedCache(this.abbrevTitleCache) ;
|
381
|
}
|
382
|
return abbrevTitleCache;
|
383
|
}
|
384
|
|
385
|
@Override
|
386
|
@Deprecated
|
387
|
public void setAbbrevTitleCache(String abbrevTitleCache) {
|
388
|
this.abbrevTitleCache = abbrevTitleCache;
|
389
|
}
|
390
|
|
391
|
@Override
|
392
|
public void setAbbrevTitleCache(String abbrevTitleCache, boolean isProtected) {
|
393
|
this.protectedAbbrevTitleCache = isProtected;
|
394
|
setAbbrevTitleCache(abbrevTitleCache);
|
395
|
}
|
396
|
|
397
|
@Override
|
398
|
public boolean isProtectedAbbrevTitleCache() {
|
399
|
return protectedAbbrevTitleCache;
|
400
|
}
|
401
|
|
402
|
@Override
|
403
|
public void setProtectedAbbrevTitleCache(boolean protectedAbbrevTitleCache) {
|
404
|
this.protectedAbbrevTitleCache = protectedAbbrevTitleCache;
|
405
|
}
|
406
|
|
407
|
@Override
|
408
|
public String getAbbrevTitle() {
|
409
|
return abbrevTitle;
|
410
|
}
|
411
|
|
412
|
@Override
|
413
|
public void setAbbrevTitle(String abbrevTitle) {
|
414
|
this.abbrevTitle = StringUtils.isBlank(abbrevTitle) ? null : abbrevTitle;
|
415
|
}
|
416
|
|
417
|
|
418
|
@Override
|
419
|
public String getEditor() {
|
420
|
return editor;
|
421
|
}
|
422
|
|
423
|
|
424
|
@Override
|
425
|
public void setEditor(String editor) {
|
426
|
this.editor = StringUtils.isBlank(editor)? null : editor;
|
427
|
}
|
428
|
|
429
|
@Override
|
430
|
public String getVolume() {
|
431
|
return volume;
|
432
|
}
|
433
|
|
434
|
@Override
|
435
|
public void setVolume(String volume) {
|
436
|
this.volume = StringUtils.isBlank(volume)? null : volume;
|
437
|
}
|
438
|
|
439
|
@Override
|
440
|
public String getPages() {
|
441
|
return pages;
|
442
|
}
|
443
|
|
444
|
@Override
|
445
|
public void setPages(String pages) {
|
446
|
this.pages = StringUtils.isBlank(pages)? null : pages;
|
447
|
}
|
448
|
|
449
|
@Override
|
450
|
public String getEdition() {
|
451
|
return edition;
|
452
|
}
|
453
|
|
454
|
@Override
|
455
|
public void setEdition(String edition) {
|
456
|
this.edition = StringUtils.isBlank(edition)? null : edition;
|
457
|
}
|
458
|
|
459
|
@Override
|
460
|
public String getIsbn() {
|
461
|
return isbn;
|
462
|
}
|
463
|
|
464
|
@Override
|
465
|
public void setIsbn(String isbn) {
|
466
|
this.isbn = StringUtils.isBlank(isbn)? null : isbn;
|
467
|
}
|
468
|
|
469
|
@Override
|
470
|
public String getIssn() {
|
471
|
return issn;
|
472
|
}
|
473
|
|
474
|
@Override
|
475
|
public void setIssn(String issn) {
|
476
|
this.issn = StringUtils.isBlank(issn)? null : issn;
|
477
|
}
|
478
|
|
479
|
@Override
|
480
|
public DOI getDoi() {
|
481
|
return doi;
|
482
|
}
|
483
|
|
484
|
@Override
|
485
|
public void setDoi(DOI doi) {
|
486
|
this.doi = doi;
|
487
|
}
|
488
|
|
489
|
@Override
|
490
|
public String getSeriesPart() {
|
491
|
return seriesPart;
|
492
|
}
|
493
|
|
494
|
@Override
|
495
|
public void setSeriesPart(String seriesPart) {
|
496
|
this.seriesPart = StringUtils.isBlank(seriesPart)? null : seriesPart;
|
497
|
}
|
498
|
|
499
|
@Override
|
500
|
public String getOrganization() {
|
501
|
return organization;
|
502
|
}
|
503
|
|
504
|
@Override
|
505
|
public void setOrganization(String organization) {
|
506
|
this.organization = StringUtils.isBlank(organization)? null : organization;
|
507
|
}
|
508
|
|
509
|
@Override
|
510
|
public String getPublisher() {
|
511
|
return publisher;
|
512
|
}
|
513
|
|
514
|
@Override
|
515
|
public void setPublisher(String publisher) {
|
516
|
this.publisher = StringUtils.isBlank(publisher)? null : publisher;
|
517
|
}
|
518
|
|
519
|
@Override
|
520
|
public void setPublisher(String publisher, String placePublished){
|
521
|
this.publisher = publisher;
|
522
|
this.placePublished = placePublished;
|
523
|
}
|
524
|
|
525
|
@Override
|
526
|
public String getPlacePublished() {
|
527
|
return placePublished;
|
528
|
}
|
529
|
|
530
|
@Override
|
531
|
public void setPlacePublished(String placePublished) {
|
532
|
this.placePublished = StringUtils.isBlank(placePublished)? null: placePublished;
|
533
|
}
|
534
|
|
535
|
@Override
|
536
|
public Institution getInstitution() {
|
537
|
return institution;
|
538
|
}
|
539
|
|
540
|
@Override
|
541
|
public void setInstitution(Institution institution) {
|
542
|
this.institution = institution;
|
543
|
}
|
544
|
|
545
|
@Override
|
546
|
public Institution getSchool() {
|
547
|
return school;
|
548
|
}
|
549
|
|
550
|
@Override
|
551
|
public void setSchool(Institution school) {
|
552
|
this.school = school;
|
553
|
}
|
554
|
|
555
|
@Override
|
556
|
public Reference getInReference() {
|
557
|
return inReference;
|
558
|
}
|
559
|
|
560
|
@Override
|
561
|
public void setInReference(Reference inReference) {
|
562
|
this.inReference = inReference;
|
563
|
}
|
564
|
|
565
|
@Override
|
566
|
public void setType(ReferenceType type) {
|
567
|
if (type == null){
|
568
|
this.type = ReferenceType.Generic;
|
569
|
} else{
|
570
|
this.type = type;
|
571
|
}
|
572
|
this.setCacheStrategy(type.getCacheStrategy());
|
573
|
}
|
574
|
@Override
|
575
|
public ReferenceType getType() {
|
576
|
return type;
|
577
|
}
|
578
|
|
579
|
/**
|
580
|
* Whether this reference is of the given type
|
581
|
*
|
582
|
* @param type
|
583
|
* @return
|
584
|
*/
|
585
|
@Override
|
586
|
public boolean isOfType(ReferenceType type){
|
587
|
return type == getType();
|
588
|
}
|
589
|
|
590
|
/**
|
591
|
* Returns a string representing the title of <i>this</i> reference. If a
|
592
|
* reference has different titles (for instance abbreviated and not
|
593
|
* abbreviated) then for each title a new instance must be created.
|
594
|
*
|
595
|
* @return the title string of <i>this</i> reference
|
596
|
* @see #getCitation()
|
597
|
*/
|
598
|
@Override
|
599
|
public String getTitle(){
|
600
|
return this.title;
|
601
|
}
|
602
|
/**
|
603
|
* @see #getTitle()
|
604
|
*/
|
605
|
@Override
|
606
|
public void setTitle(String title){
|
607
|
this.title = StringUtils.isBlank(title)? null : title;
|
608
|
}
|
609
|
|
610
|
/**
|
611
|
* Returns the date (mostly only the year) of publication / creation of
|
612
|
* <i>this</i> reference.
|
613
|
*/
|
614
|
@Override
|
615
|
public TimePeriod getDatePublished(){
|
616
|
return this.datePublished;
|
617
|
}
|
618
|
/**
|
619
|
* @see #getDatePublished()
|
620
|
*/
|
621
|
@Override
|
622
|
public void setDatePublished(TimePeriod datePublished){
|
623
|
this.datePublished = datePublished;
|
624
|
}
|
625
|
|
626
|
public boolean hasDatePublished(){
|
627
|
boolean result = ! ( (this.datePublished == null) || StringUtils.isBlank(datePublished.toString()));
|
628
|
return result;
|
629
|
}
|
630
|
|
631
|
/**
|
632
|
* Returns the {@link eu.etaxonomy.cdm.model.agent.TeamOrPersonBase author (team)} who created the
|
633
|
* content of <i>this</i> reference.
|
634
|
*
|
635
|
* @return the author (team) of <i>this</i> reference
|
636
|
* @see eu.etaxonomy.cdm.model.agent.TeamOrPersonBase
|
637
|
*/
|
638
|
@Override
|
639
|
public TeamOrPersonBase getAuthorship(){
|
640
|
return this.authorship;
|
641
|
}
|
642
|
|
643
|
/**
|
644
|
* @see #getAuthorship()
|
645
|
*/
|
646
|
@Override
|
647
|
public void setAuthorship(TeamOrPersonBase authorship){
|
648
|
this.authorship = authorship;
|
649
|
}
|
650
|
|
651
|
/**
|
652
|
* Returns the Uniform Resource Identifier (URI) corresponding to <i>this</i>
|
653
|
* reference. An URI is a string of characters used to identify a resource
|
654
|
* on the Internet.
|
655
|
*
|
656
|
* @return the URI of <i>this</i> reference
|
657
|
*/
|
658
|
@Override
|
659
|
public URI getUri(){
|
660
|
return this.uri;
|
661
|
}
|
662
|
/**
|
663
|
* @see #getUri()
|
664
|
*/
|
665
|
@Override
|
666
|
public void setUri(URI uri){
|
667
|
this.uri = uri;
|
668
|
}
|
669
|
|
670
|
/**
|
671
|
* @return the referenceAbstract
|
672
|
*/
|
673
|
@Override
|
674
|
public String getReferenceAbstract() {
|
675
|
return referenceAbstract;
|
676
|
}
|
677
|
|
678
|
/**
|
679
|
* @param referenceAbstract the referenceAbstract to set
|
680
|
*/
|
681
|
@Override
|
682
|
public void setReferenceAbstract(String referenceAbstract) {
|
683
|
this.referenceAbstract = StringUtils.isBlank(referenceAbstract)? null : referenceAbstract;
|
684
|
}
|
685
|
|
686
|
|
687
|
/**
|
688
|
* Returns "true" if the isNomenclaturallyRelevant flag is set. This
|
689
|
* indicates that a {@link TaxonNameBase taxon name} has been originally
|
690
|
* published in <i>this</i> reference following the rules of a
|
691
|
* {@link eu.etaxonomy.cdm.model.name.NomenclaturalCode nomenclature code} and is therefore used for
|
692
|
* nomenclatural citations. This flag will be set as soon as <i>this</i>
|
693
|
* reference is used as a nomenclatural reference for any taxon name.<BR>
|
694
|
* FIXME what happens if the only taxon name referencing this reference is not
|
695
|
* any longer using this reference as a nomenclatural reference. How does the
|
696
|
* reference get informed about the fact that it is not nomenclaturally relevant
|
697
|
* anymore?
|
698
|
*/
|
699
|
public boolean isNomenclaturallyRelevant(){
|
700
|
return this.nomenclaturallyRelevant;
|
701
|
}
|
702
|
|
703
|
/**
|
704
|
* @see #isNomenclaturallyRelevant()
|
705
|
*/
|
706
|
public void setNomenclaturallyRelevant(boolean nomenclaturallyRelevant){
|
707
|
this.nomenclaturallyRelevant = nomenclaturallyRelevant;
|
708
|
}
|
709
|
|
710
|
|
711
|
//**************************************************** /
|
712
|
|
713
|
|
714
|
/**
|
715
|
* Returns a formatted string containing the entire reference citation,
|
716
|
* including authors, corresponding to <i>this</i> reference.
|
717
|
*
|
718
|
* @see #generateTitle()
|
719
|
*/
|
720
|
// TODO implement
|
721
|
@Transient
|
722
|
public String getCitation(){
|
723
|
rectifyCacheStrategy();
|
724
|
if (getCacheStrategy() == null){
|
725
|
logger.warn("No CacheStrategy defined for "+ this.getClass() + ": " + this.getUuid());
|
726
|
return null;
|
727
|
}else{
|
728
|
return getCacheStrategy().getTitleCache(this);
|
729
|
}
|
730
|
}
|
731
|
|
732
|
|
733
|
@Override
|
734
|
public String generateTitle() {
|
735
|
rectifyCacheStrategy();
|
736
|
return super.generateTitle();
|
737
|
}
|
738
|
|
739
|
public String generateAbbrevTitle() {
|
740
|
rectifyCacheStrategy(); //TODO needed, is called by getCacheStrategy already
|
741
|
return getCacheStrategy().getFullAbbrevTitleString(this);
|
742
|
}
|
743
|
|
744
|
/**
|
745
|
* Returns a string representation for the year of publication / creation
|
746
|
* of <i>this</i> reference. If the {@link #getDatePublished() datePublished}
|
747
|
* of this reference contains more date information then (starting) year
|
748
|
* only the year is returned.
|
749
|
* than attribute.
|
750
|
*/
|
751
|
@Override
|
752
|
@Transient
|
753
|
public String getYear(){
|
754
|
TimePeriod datePublished = this.getDatePublished();
|
755
|
if (datePublished != null ){
|
756
|
String result = getDatePublished().getYear();
|
757
|
return result;
|
758
|
}else{
|
759
|
return null;
|
760
|
}
|
761
|
}
|
762
|
|
763
|
/**
|
764
|
* Convenience method that returns a string representation for the publication date / creation
|
765
|
* of <i>this</i> reference. The string is obtained by
|
766
|
* {@link #getDatePublished()#toString() the string representation
|
767
|
* of the date published}.
|
768
|
*/
|
769
|
@Transient
|
770
|
public String getDatePublishedString(){
|
771
|
TimePeriod datePublished = this.getDatePublished();
|
772
|
if (datePublished != null ){
|
773
|
return getDatePublished().toString();
|
774
|
}else{
|
775
|
return null;
|
776
|
}
|
777
|
}
|
778
|
|
779
|
|
780
|
@Override
|
781
|
public int getParsingProblem(){
|
782
|
return this.parsingProblem;
|
783
|
}
|
784
|
|
785
|
@Override
|
786
|
public void setParsingProblem(int parsingProblem){
|
787
|
this.parsingProblem = parsingProblem;
|
788
|
}
|
789
|
|
790
|
@Override
|
791
|
public boolean hasProblem(){
|
792
|
return parsingProblem != 0;
|
793
|
}
|
794
|
|
795
|
@Override
|
796
|
public boolean hasProblem(ParserProblem problem) {
|
797
|
return getParsingProblems().contains(problem);
|
798
|
}
|
799
|
|
800
|
@Override
|
801
|
public int getProblemStarts(){
|
802
|
return this.problemStarts;
|
803
|
}
|
804
|
|
805
|
@Override
|
806
|
public void setProblemStarts(int start) {
|
807
|
this.problemStarts = start;
|
808
|
}
|
809
|
|
810
|
@Override
|
811
|
public int getProblemEnds(){
|
812
|
return this.problemEnds;
|
813
|
}
|
814
|
|
815
|
@Override
|
816
|
public void setProblemEnds(int end) {
|
817
|
this.problemEnds = end;
|
818
|
}
|
819
|
|
820
|
@Override
|
821
|
public void addParsingProblem(ParserProblem warning){
|
822
|
parsingProblem = ParserProblem.addProblem(parsingProblem, warning);
|
823
|
}
|
824
|
|
825
|
@Override
|
826
|
public void removeParsingProblem(ParserProblem problem) {
|
827
|
parsingProblem = ParserProblem.removeProblem(parsingProblem, problem);
|
828
|
}
|
829
|
|
830
|
@Override
|
831
|
@Transient
|
832
|
public List<ParserProblem> getParsingProblems() {
|
833
|
return ParserProblem.warningList(this.parsingProblem);
|
834
|
}
|
835
|
|
836
|
|
837
|
@Override
|
838
|
@Transient
|
839
|
public String getNomenclaturalCitation(String microReference) {
|
840
|
rectifyCacheStrategy();
|
841
|
String typeName = this.getType()== null ? "(no type defined)" : this.getType().getMessage();
|
842
|
if (getCacheStrategy() == null){
|
843
|
logger.warn("No CacheStrategy defined for "+ typeName + ": " + this.getUuid());
|
844
|
return null;
|
845
|
}else{
|
846
|
if (getCacheStrategy() instanceof INomenclaturalReferenceCacheStrategy){
|
847
|
return ((INomenclaturalReferenceCacheStrategy)cacheStrategy).getNomenclaturalCitation(this, microReference);
|
848
|
}else {
|
849
|
logger.warn("No INomenclaturalReferenceCacheStrategy defined for "+ typeName + ": " + this.getUuid());
|
850
|
return null;
|
851
|
}
|
852
|
}
|
853
|
}
|
854
|
|
855
|
|
856
|
/**
|
857
|
* Generates, according to the {@link eu.etaxonomy.cdm.strategy.strategy.cache.reference.IReferenceBaseCacheStrategy cache strategy}
|
858
|
* assigned to <i>this</i> reference, a string that identifies <i>this</i>
|
859
|
* reference and returns it. This string may be stored in the inherited
|
860
|
* {@link eu.etaxonomy.cdm.model.common.IdentifiableEntity#getTitleCache() titleCache} attribute.<BR>
|
861
|
* This method overrides the generic and inherited generateTitle method
|
862
|
* from {@link eu.etaxonomy.cdm.model.common.IdentifiableEntity IdentifiableEntity}.
|
863
|
*
|
864
|
* @return the string identifying <i>this</i> reference
|
865
|
* @see #getCitation()
|
866
|
* @see eu.etaxonomy.cdm.model.common.IdentifiableEntity#getTitleCache()
|
867
|
* @see eu.etaxonomy.cdm.model.common.IdentifiableEntity#generateTitle()
|
868
|
* @see eu.etaxonomy.cdm.strategy.strategy.cache.common.IIdentifiableEntityCacheStrategy#getTitleCache()
|
869
|
*/
|
870
|
// @Override
|
871
|
// public String generateTitle(){
|
872
|
// if (cacheStrategy == null){
|
873
|
// logger.warn("No CacheStrategy defined for Reference: " + this.getUuid());
|
874
|
// return null;
|
875
|
// }else{
|
876
|
// return cacheStrategy.getTitleCache(this);
|
877
|
// }
|
878
|
// }
|
879
|
|
880
|
|
881
|
|
882
|
//********** Casting methods ***********************************/
|
883
|
|
884
|
/**
|
885
|
* @return
|
886
|
*/
|
887
|
public IArticle castReferenceToArticle(){
|
888
|
setType(ReferenceType.Article);
|
889
|
return this;
|
890
|
}
|
891
|
|
892
|
public IBook castReferenceToBook(){
|
893
|
setType(ReferenceType.Book);
|
894
|
return this;
|
895
|
}
|
896
|
|
897
|
public IBookSection castReferenceToBookSection(){
|
898
|
setType(ReferenceType.BookSection);
|
899
|
return this;
|
900
|
}
|
901
|
|
902
|
public ICdDvd castReferenceToCdDvd(){
|
903
|
setType(ReferenceType.CdDvd);
|
904
|
return this;
|
905
|
}
|
906
|
|
907
|
public IDatabase castReferenceToDatabase(){
|
908
|
setType(ReferenceType.Database);
|
909
|
return this;
|
910
|
}
|
911
|
|
912
|
public IGeneric castReferenceToGeneric(){
|
913
|
setType(ReferenceType.Generic);
|
914
|
return this;
|
915
|
}
|
916
|
|
917
|
public IInProceedings castReferenceToInProceedings(){
|
918
|
setType(ReferenceType.InProceedings);
|
919
|
return this;
|
920
|
}
|
921
|
|
922
|
public IJournal castReferenceToJournal(){
|
923
|
setType(ReferenceType.Journal);
|
924
|
return this;
|
925
|
}
|
926
|
|
927
|
public IMap castReferenceToMap(){
|
928
|
setType(ReferenceType.Map);
|
929
|
return (IMap) this;
|
930
|
}
|
931
|
|
932
|
public IPatent castReferenceToPatent(){
|
933
|
setType(ReferenceType.Patent);
|
934
|
return this;
|
935
|
}
|
936
|
|
937
|
public IPersonalCommunication castReferenceToPersonalCommunication(){
|
938
|
setType(ReferenceType.PersonalCommunication);
|
939
|
return this;
|
940
|
}
|
941
|
|
942
|
public IPrintSeries castReferenceToPrintSeries(){
|
943
|
setType(ReferenceType.PrintSeries);
|
944
|
return this;
|
945
|
}
|
946
|
|
947
|
public IWebPage castReferenceToWebPage(){
|
948
|
setType(ReferenceType.WebPage);
|
949
|
return this;
|
950
|
}
|
951
|
|
952
|
public IProceedings castReferenceToProceedings(){
|
953
|
setType(ReferenceType.Proceedings);
|
954
|
return this;
|
955
|
}
|
956
|
|
957
|
public IReport castReferenceToReport(){
|
958
|
setType(ReferenceType.Report);
|
959
|
return this;
|
960
|
}
|
961
|
|
962
|
public IThesis castReferenceToThesis(){
|
963
|
setType(ReferenceType.Thesis);
|
964
|
return this;
|
965
|
}
|
966
|
|
967
|
|
968
|
@Override
|
969
|
@Transient // prevent from being serialized by webservice
|
970
|
public IJournal getInJournal() {
|
971
|
IJournal journal = this.inReference;
|
972
|
return journal;
|
973
|
}
|
974
|
|
975
|
@Override
|
976
|
public void setInJournal(IJournal journal) {
|
977
|
this.inReference = (Reference)journal;
|
978
|
|
979
|
}
|
980
|
|
981
|
@Override
|
982
|
@Transient // prevent from being serialized by webservice
|
983
|
public IPrintSeries getInSeries() {
|
984
|
IPrintSeries printSeries = this.inReference;
|
985
|
return printSeries;
|
986
|
}
|
987
|
|
988
|
@Override
|
989
|
public void setInSeries(IPrintSeries inSeries) {
|
990
|
this.inReference = (Reference) inSeries;
|
991
|
}
|
992
|
|
993
|
@Override
|
994
|
@Transient // prevent from being serialized by webservice
|
995
|
public IBook getInBook() {
|
996
|
IBook book = this.inReference;
|
997
|
return book;
|
998
|
}
|
999
|
|
1000
|
//********************** In-References *****************************************
|
1001
|
|
1002
|
@Override
|
1003
|
public void setInBook(IBook book) {
|
1004
|
this.inReference = (Reference) book;
|
1005
|
}
|
1006
|
|
1007
|
@Override
|
1008
|
@Transient // prevent from being serialized by webservice
|
1009
|
public IProceedings getInProceedings() {
|
1010
|
IProceedings proceedings = this.inReference;
|
1011
|
return proceedings;
|
1012
|
}
|
1013
|
|
1014
|
@Override
|
1015
|
public void setInProceedings(IProceedings proceeding) {
|
1016
|
this.inReference = (Reference) proceeding;
|
1017
|
}
|
1018
|
|
1019
|
//*************************** CACHE STRATEGIES ******************************/
|
1020
|
|
1021
|
@Override
|
1022
|
public IReferenceCacheStrategy getCacheStrategy() {
|
1023
|
rectifyCacheStrategy();
|
1024
|
return this.cacheStrategy;
|
1025
|
}
|
1026
|
|
1027
|
/**
|
1028
|
* The type property of this class is mapped on the field level to the data base column, so
|
1029
|
* Hibernate will consequently use the {@link org.hibernate.property.DirectPropertyAccessor}
|
1030
|
* to set the property. This PropertyAccessor directly sets the field instead of using the according setter so
|
1031
|
* the CacheStrategy is not correctly set after the initialization of the bean. Thus we need to
|
1032
|
* validate the CacheStrategy before it is to be used.
|
1033
|
*/
|
1034
|
private void rectifyCacheStrategy() {
|
1035
|
if(!cacheStrategyRectified ){
|
1036
|
setType(getType());
|
1037
|
cacheStrategyRectified = true;
|
1038
|
}
|
1039
|
}
|
1040
|
|
1041
|
|
1042
|
@Override
|
1043
|
public void setCacheStrategy(IReferenceCacheStrategy iReferenceBaseCacheStrategy) {
|
1044
|
this.cacheStrategy = iReferenceBaseCacheStrategy;
|
1045
|
|
1046
|
}
|
1047
|
|
1048
|
@Override
|
1049
|
public void setCacheStrategy(ArticleDefaultCacheStrategy cacheStrategy) {
|
1050
|
this.cacheStrategy = cacheStrategy;
|
1051
|
}
|
1052
|
|
1053
|
@Override
|
1054
|
public void setCacheStrategy(BookDefaultCacheStrategy cacheStrategy) {
|
1055
|
this.cacheStrategy = cacheStrategy;
|
1056
|
}
|
1057
|
|
1058
|
@Override
|
1059
|
public void setCacheStrategy(JournalDefaultCacheStrategy cacheStrategy) {
|
1060
|
this.cacheStrategy = cacheStrategy;
|
1061
|
}
|
1062
|
|
1063
|
@Override
|
1064
|
public void setCacheStrategy(BookSectionDefaultCacheStrategy cacheStrategy) {
|
1065
|
this.cacheStrategy = cacheStrategy;
|
1066
|
}
|
1067
|
|
1068
|
@Override
|
1069
|
public void setCacheStrategy(GenericDefaultCacheStrategy cacheStrategy) {
|
1070
|
this.cacheStrategy = cacheStrategy;
|
1071
|
}
|
1072
|
|
1073
|
public void setCacheStrategy(ReferenceDefaultCacheStrategy cacheStrategy) {
|
1074
|
this.cacheStrategy = cacheStrategy;
|
1075
|
|
1076
|
}
|
1077
|
|
1078
|
|
1079
|
|
1080
|
// @Override
|
1081
|
// protected void initListener(){
|
1082
|
// PropertyChangeListener listener = new PropertyChangeListener() {
|
1083
|
// @Override
|
1084
|
// public void propertyChange(PropertyChangeEvent e) {
|
1085
|
// boolean protectedByLowerCache = false;
|
1086
|
// //authorship cache
|
1087
|
// if (fieldHasCacheUpdateProperty(e.getPropertyName(), "authorshipCache")){
|
1088
|
// if (protectedAuthorshipCache){
|
1089
|
// protectedByLowerCache = true;
|
1090
|
// }else{
|
1091
|
// authorshipCache = null;
|
1092
|
// }
|
1093
|
// }
|
1094
|
//
|
1095
|
// //title cache
|
1096
|
// if (! fieldHasNoUpdateProperty(e.getPropertyName(), "titleCache")){
|
1097
|
// if (isProtectedTitleCache()|| protectedByLowerCache == true ){
|
1098
|
// protectedByLowerCache = true;
|
1099
|
// }else{
|
1100
|
// titleCache = null;
|
1101
|
// }
|
1102
|
// }
|
1103
|
// //full title cache
|
1104
|
// if (! fieldHasNoUpdateProperty(e.getPropertyName(), "fullTitleCache")){
|
1105
|
// if (isProtectedFullTitleCache()|| protectedByLowerCache == true ){
|
1106
|
// protectedByLowerCache = true;
|
1107
|
// }else{
|
1108
|
// fullTitleCache = null;
|
1109
|
// }
|
1110
|
// }
|
1111
|
// }
|
1112
|
// };
|
1113
|
// addPropertyChangeListener(listener); //didn't use this.addXXX to make lsid.AssemblerTest run in cdmlib-remote
|
1114
|
// }
|
1115
|
|
1116
|
|
1117
|
//*********************** CLONE ********************************************************/
|
1118
|
|
1119
|
/**
|
1120
|
* Clones <i>this</i> reference. This is a shortcut that enables to create
|
1121
|
* a new instance that differs only slightly from <i>this</i> reference by
|
1122
|
* modifying only some of the attributes.
|
1123
|
*
|
1124
|
* @see eu.etaxonomy.cdm.model.media.IdentifiableMediaEntity#clone()
|
1125
|
* @see java.lang.Object#clone()
|
1126
|
*/
|
1127
|
@Override
|
1128
|
public Object clone() {
|
1129
|
try {
|
1130
|
Reference result = (Reference)super.clone();
|
1131
|
result.setDatePublished(datePublished != null? (TimePeriod)datePublished.clone(): null);
|
1132
|
//no changes to: title, authorship, hasProblem, nomenclaturallyRelevant, uri
|
1133
|
return result;
|
1134
|
} catch (CloneNotSupportedException e) {
|
1135
|
logger.warn("Object does not implement cloneable");
|
1136
|
e.printStackTrace();
|
1137
|
return null;
|
1138
|
}
|
1139
|
}
|
1140
|
|
1141
|
//******************************* toString *****************************/
|
1142
|
|
1143
|
@Override
|
1144
|
public String toString() {
|
1145
|
if (type != null){
|
1146
|
String result = "Reference [type=" + type + ", id= " + this.getId() + ", uuid=" + this.uuid ;
|
1147
|
result += title == null ? "" : ", title=" + title;
|
1148
|
result += abbrevTitle == null ? "" : ", abbrevTitle=" + abbrevTitle;
|
1149
|
result += "]";
|
1150
|
return result;
|
1151
|
}else{
|
1152
|
return super.toString();
|
1153
|
}
|
1154
|
}
|
1155
|
|
1156
|
|
1157
|
|
1158
|
|
1159
|
}
|
1160
|
|