|
1
|
package eu.dnetlib.data.transform.xml;
|
|
2
|
|
|
3
|
import java.util.List;
|
|
4
|
import java.util.Map;
|
|
5
|
|
|
6
|
import com.google.common.collect.Iterables;
|
|
7
|
import com.google.common.collect.Lists;
|
|
8
|
import com.google.protobuf.Descriptors.Descriptor;
|
|
9
|
import eu.dnetlib.data.graph.model.DNGFRowKeyDecoder;
|
|
10
|
import eu.dnetlib.data.proto.DNGFProtos.DNGF;
|
|
11
|
import eu.dnetlib.data.proto.DNGFProtos.DNGFEntity;
|
|
12
|
import eu.dnetlib.data.proto.FieldTypeProtos.*;
|
|
13
|
import eu.dnetlib.data.proto.PersonProtos.Person;
|
|
14
|
import eu.dnetlib.data.proto.PublicationProtos.Publication;
|
|
15
|
import eu.dnetlib.data.proto.TypeProtos.Type;
|
|
16
|
import org.apache.commons.lang3.StringUtils;
|
|
17
|
import org.w3c.dom.NodeList;
|
|
18
|
|
|
19
|
public class OafToHbaseXsltFunctions extends CommonDNetXsltFunctions {
|
|
20
|
|
|
21
|
public static String oafPublication(
|
|
22
|
final String resultId,
|
|
23
|
final String provenance,
|
|
24
|
final String trust,
|
|
25
|
final NodeList about,
|
|
26
|
final String hostedbyId,
|
|
27
|
final String hostedbyName,
|
|
28
|
final String collectedFromId,
|
|
29
|
final String collectedFromName,
|
|
30
|
final String originalId,
|
|
31
|
final String dateOfCollection,
|
|
32
|
final String dateOfTransformation,
|
|
33
|
final NodeList nodelist) {
|
|
34
|
try {
|
|
35
|
final String entityId = DNGFRowKeyDecoder.decode(resultId).getKey();
|
|
36
|
final ValueMap values = ValueMap.parseNodeList(nodelist);
|
|
37
|
final Descriptor mDesc = Publication.Metadata.getDescriptor();
|
|
38
|
|
|
39
|
final Publication.Metadata.Builder metadata = buildMetadata(values, mDesc);
|
|
40
|
final Publication.Builder result = buildPublication(metadata, values, mDesc, hostedbyId, hostedbyName);
|
|
41
|
final DNGFEntity.Builder entity = buildOafEntity(result, entityId, nodelist, getKV(collectedFromId, collectedFromName), originalId);
|
|
42
|
entity.setDateofcollection(dateOfCollection)
|
|
43
|
.setDateoftransformation(dateOfTransformation).setOaiprovenance(getOAIProvenance(about));
|
|
44
|
|
|
45
|
final DNGF oaf = getOaf(entity, getDataInfo(about, provenance, trust, false, false));
|
|
46
|
return base64(oaf.toByteArray());
|
|
47
|
} catch (final Throwable e) {
|
|
48
|
handleException(e, resultId, hostedbyId, hostedbyName, provenance, trust, collectedFromId, collectedFromName, originalId, dateOfCollection);
|
|
49
|
}
|
|
50
|
return null;
|
|
51
|
}
|
|
52
|
|
|
53
|
public static String oafPublicationUpdate(final String resultId,
|
|
54
|
final String provenance,
|
|
55
|
final String trust,
|
|
56
|
final NodeList nodelist,
|
|
57
|
final String hostedbyId,
|
|
58
|
final String hostedbyName) {
|
|
59
|
try {
|
|
60
|
final String entityId = DNGFRowKeyDecoder.decode(resultId).getKey();
|
|
61
|
final ValueMap values = ValueMap.parseNodeList(nodelist);
|
|
62
|
final Descriptor mDesc = Publication.Metadata.getDescriptor();
|
|
63
|
|
|
64
|
final Publication.Metadata.Builder metadata = buildMetadata(values, mDesc);
|
|
65
|
final Publication.Builder result = buildPublication(metadata, values, mDesc, hostedbyId, hostedbyName);
|
|
66
|
|
|
67
|
final DNGFEntity.Builder entity = buildOafEntity(result, entityId, nodelist, null, null);
|
|
68
|
final DNGF oaf = getOaf(entity, null);
|
|
69
|
return base64(oaf.toByteArray());
|
|
70
|
} catch (final Throwable e) {
|
|
71
|
handleException(e, resultId, hostedbyId, hostedbyName, provenance, trust, null, null, null, null);
|
|
72
|
}
|
|
73
|
return null;
|
|
74
|
}
|
|
75
|
|
|
76
|
private static DNGFEntity.Builder buildOafEntity(final Publication.Builder pub,
|
|
77
|
final String entityId,
|
|
78
|
final NodeList nodelist,
|
|
79
|
KeyValue collectedFrom,
|
|
80
|
String originalId) {
|
|
81
|
|
|
82
|
final List<StructuredProperty> pids = Lists.newArrayList();
|
|
83
|
pids.addAll(parsePids(nodelist));
|
|
84
|
|
|
85
|
final DNGFEntity.Builder entity =
|
|
86
|
getEntity(Type.publication, entityId, collectedFrom, StringUtils.isBlank(originalId) ? null : Lists.newArrayList(originalId), null, null, pids)
|
|
87
|
.setPublication(pub);
|
|
88
|
return entity;
|
|
89
|
}
|
|
90
|
|
|
91
|
protected static Publication.Metadata.Builder buildMetadata(final ValueMap values, final Descriptor mDesc) {
|
|
92
|
final Publication.Metadata.Builder metadata = Publication.Metadata.newBuilder();
|
|
93
|
addStructuredProps(metadata, mDesc.findFieldByName("subject"), values.get("subject").listValues(), "keyword", "dnet:result_subject");
|
|
94
|
addStructuredProps(metadata, mDesc.findFieldByName("title"), values.get("title").listValues(), "main title", "dnet:dataCite_title");
|
|
95
|
for (final String fieldname : Lists.newArrayList("description", "source", "contributor")) {
|
|
96
|
if (values.get(fieldname) != null) {
|
|
97
|
for (final String s : values.get(fieldname).listValues()) {
|
|
98
|
addField(metadata, mDesc.findFieldByName(fieldname), s);
|
|
99
|
}
|
|
100
|
}
|
|
101
|
}
|
|
102
|
addField(metadata, mDesc.findFieldByName("language"), setQualifier(getDefaultQualifier("dnet:languages"), values.get("language").listValues()));
|
|
103
|
addField(metadata, mDesc.findFieldByName("dateofacceptance"), values.get("dateaccepted").listValues());
|
|
104
|
addField(metadata, mDesc.findFieldByName("publisher"), values.get("publisher").listValues());
|
|
105
|
addField(metadata, mDesc.findFieldByName("embargoenddate"), values.get("embargoenddate").listValues());
|
|
106
|
addField(metadata, mDesc.findFieldByName("storagedate"), values.get("storagedate").listValues());
|
|
107
|
|
|
108
|
addField(metadata, mDesc.findFieldByName("resulttype"), getSimpleQualifier("publication", "dnet:result_typologies"));
|
|
109
|
|
|
110
|
addField(metadata, mDesc.findFieldByName("fulltext"), values.get("fulltext").listValues());
|
|
111
|
addField(metadata, mDesc.findFieldByName("format"), values.get("format").listValues());
|
|
112
|
if (values.get("concept") != null) {
|
|
113
|
for (final Element e : values.get("concept")) {
|
|
114
|
final String id = e.getAttributes().get("id");
|
|
115
|
if (StringUtils.isBlank(id)) throw new IllegalArgumentException("Context id cannot be blank");
|
|
116
|
metadata.addContext(Context.newBuilder().setId(id));
|
|
117
|
}
|
|
118
|
}
|
|
119
|
if (values.get("journal") != null) {
|
|
120
|
for (final Element e : values.get("journal")) {
|
|
121
|
|
|
122
|
final Journal.Builder journal = Journal.newBuilder();
|
|
123
|
if (e.getText() != null) {
|
|
124
|
journal.setName(e.getText());
|
|
125
|
}
|
|
126
|
|
|
127
|
final Map<String, String> attr = e.getAttributes();
|
|
128
|
if (attr != null) {
|
|
129
|
if (attr.get("issn") != null) {
|
|
130
|
journal.setIssnPrinted(attr.get("issn"));
|
|
131
|
}
|
|
132
|
if (attr.get("eissn") != null) {
|
|
133
|
journal.setIssnOnline(attr.get("eissn"));
|
|
134
|
}
|
|
135
|
if (attr.get("lissn") != null) {
|
|
136
|
journal.setIssnLinking(attr.get("lissn"));
|
|
137
|
}
|
|
138
|
}
|
|
139
|
metadata.setJournal(journal.build());
|
|
140
|
}
|
|
141
|
}
|
|
142
|
return metadata;
|
|
143
|
}
|
|
144
|
|
|
145
|
protected static Publication.Builder buildPublication(final Publication.Metadata.Builder metadata,
|
|
146
|
final ValueMap values,
|
|
147
|
final Descriptor mDesc,
|
|
148
|
final String hostedbyId,
|
|
149
|
final String hostedbyName) {
|
|
150
|
final Publication.Builder result = Publication.newBuilder();
|
|
151
|
if (values.get("creator") != null) {
|
|
152
|
for (final String fullname : Iterables.limit(values.get("creator").listValues(), 10)) {
|
|
153
|
|
|
154
|
final Person.Metadata.Builder authorMetadata = Person.Metadata.newBuilder();
|
|
155
|
|
|
156
|
authorMetadata.setFullname(sf(fullname));
|
|
157
|
|
|
158
|
final eu.dnetlib.pace.model.Person p = new eu.dnetlib.pace.model.Person(fullname, false);
|
|
159
|
if (p.isAccurate()) {
|
|
160
|
authorMetadata.setFirstname(sf(p.getNormalisedFirstName()));
|
|
161
|
authorMetadata.clearSecondnames().addSecondnames(sf(p.getNormalisedSurname()));
|
|
162
|
authorMetadata.setFullname(sf(p.getNormalisedFullname()));
|
|
163
|
}
|
|
164
|
|
|
165
|
result.addAuthor(Person.newBuilder().setMetadata(authorMetadata));
|
|
166
|
}
|
|
167
|
}
|
|
168
|
|
|
169
|
final Instance.Builder instance = Instance.newBuilder().setHostedby(getKV(hostedbyId, hostedbyName));
|
|
170
|
|
|
171
|
addField(instance, Instance.getDescriptor().findFieldByName("licence"),
|
|
172
|
setQualifier(getDefaultQualifier("dnet:access_modes"), values.get("accessrights").listValues()));
|
|
173
|
addField(instance, Instance.getDescriptor().findFieldByName("instancetype"),
|
|
174
|
setQualifier(getDefaultQualifier("dnet:publication_resource"), values.get("cobjcategory").listValues()));
|
|
175
|
|
|
176
|
if (values.get("identifier") != null) {
|
|
177
|
addField(instance, Instance.getDescriptor().findFieldByName("url"),
|
|
178
|
Lists.newArrayList(Iterables.filter(values.get("identifier").listValues(), urlFilter)));
|
|
179
|
}
|
|
180
|
|
|
181
|
result.addInstance(instance);
|
|
182
|
|
|
183
|
final List<Element> extrefs = values.get("reference");
|
|
184
|
if (!extrefs.isEmpty()) {
|
|
185
|
final Descriptor extDesc = ExternalReference.getDescriptor();
|
|
186
|
for (final Element element : extrefs) {
|
|
187
|
final ExternalReference.Builder extref = ExternalReference.newBuilder();
|
|
188
|
addField(extref, extDesc.findFieldByName("url"), element.getText());
|
|
189
|
addField(extref, extDesc.findFieldByName("sitename"), element.getAttributes().get("source"));
|
|
190
|
addField(extref, extDesc.findFieldByName("refidentifier"), element.getAttributes().get("identifier"));
|
|
191
|
addField(extref, extDesc.findFieldByName("label"), element.getAttributes().get("title"));
|
|
192
|
addField(extref, extDesc.findFieldByName("query"), element.getAttributes().get("query"));
|
|
193
|
addField(extref, extDesc.findFieldByName("qualifier"),
|
|
194
|
setQualifier(getDefaultQualifier("dnet:externalReference_typologies"), Lists.newArrayList(element.getAttributes().get("type")))
|
|
195
|
.build());
|
|
196
|
|
|
197
|
result.addExternalReference(extref);
|
|
198
|
}
|
|
199
|
}
|
|
200
|
|
|
201
|
return result.setMetadata(metadata);
|
|
202
|
}
|
|
203
|
|
|
204
|
private static void handleException(Throwable e, final String resultId, final String hostedbyId, final String hostedbyName,
|
|
205
|
final String provenance, final String trust, final String collectedFromId, final String collectedFromName,
|
|
206
|
final String originalId, final String dateOfCollection) {
|
|
207
|
System.err.println("resultId: " + resultId);
|
|
208
|
if (StringUtils.isNotBlank(hostedbyId)) System.err.println("hostedbyId: " + hostedbyId);
|
|
209
|
if (StringUtils.isNotBlank(hostedbyName)) System.err.println("hostedbyName: " + hostedbyName);
|
|
210
|
if (StringUtils.isNotBlank(provenance)) System.err.println("provenance: " + provenance);
|
|
211
|
if (StringUtils.isNotBlank(trust)) System.err.println("trust: " + trust);
|
|
212
|
if (StringUtils.isNotBlank(collectedFromId)) System.err.println("collectedFromId: " + collectedFromId);
|
|
213
|
if (StringUtils.isNotBlank(collectedFromName)) System.err.println("collectedFromName: " + collectedFromName);
|
|
214
|
if (StringUtils.isNotBlank(originalId)) System.err.println("originalId: " + originalId);
|
|
215
|
if (StringUtils.isNotBlank(dateOfCollection)) System.err.println("dateOfCollection: " + dateOfCollection);
|
|
216
|
e.printStackTrace();
|
|
217
|
throw new RuntimeException(e);
|
|
218
|
}
|
|
219
|
|
|
220
|
|
|
221
|
public static String personPublication_Authorship(
|
|
222
|
final String personIdentifier,
|
|
223
|
final String datasetIdentifier,
|
|
224
|
final int position,
|
|
225
|
final String relation,
|
|
226
|
final String provenance,
|
|
227
|
final String trust,
|
|
228
|
final NodeList about) {
|
|
229
|
|
|
230
|
return authorship(personIdentifier, "person",
|
|
231
|
datasetIdentifier, "publication", position,
|
|
232
|
relation, provenance, trust, about);
|
|
233
|
|
|
234
|
|
|
235
|
}
|
|
236
|
}
|