2 * Copyright (C) 2007 EDIT
3 * European Distributed Institute of Taxonomy
4 * http://www.e-taxonomy.eu
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.
10 package eu
.etaxonomy
.cdm
.app
.wp6
.palmae
;
14 import java
.net
.URISyntaxException
;
15 import java
.util
.UUID
;
17 import org
.apache
.log4j
.Logger
;
19 import eu
.etaxonomy
.cdm
.api
.application
.ICdmRepository
;
20 import eu
.etaxonomy
.cdm
.app
.common
.CdmDestinations
;
21 import eu
.etaxonomy
.cdm
.app
.images
.ImageImportConfigurator
;
22 import eu
.etaxonomy
.cdm
.app
.tcs
.TcsSources
;
23 import eu
.etaxonomy
.cdm
.app
.wp6
.palmae
.config
.PalmaeProtologueImportConfigurator
;
24 import eu
.etaxonomy
.cdm
.database
.DbSchemaValidation
;
25 import eu
.etaxonomy
.cdm
.database
.ICdmDataSource
;
26 import eu
.etaxonomy
.cdm
.io
.PalmaeImageImport
;
27 import eu
.etaxonomy
.cdm
.io
.PalmaeProtologueImport
;
28 import eu
.etaxonomy
.cdm
.io
.common
.CdmDefaultImport
;
29 import eu
.etaxonomy
.cdm
.io
.common
.IImportConfigurator
;
30 import eu
.etaxonomy
.cdm
.io
.common
.IImportConfigurator
.CHECK
;
31 import eu
.etaxonomy
.cdm
.io
.common
.IImportConfigurator
.DO_REFERENCES
;
32 import eu
.etaxonomy
.cdm
.io
.common
.ImportResult
;
33 import eu
.etaxonomy
.cdm
.io
.tcsrdf
.TcsRdfImportConfigurator
;
34 import eu
.etaxonomy
.cdm
.model
.description
.Feature
;
35 import eu
.etaxonomy
.cdm
.model
.description
.FeatureNode
;
36 import eu
.etaxonomy
.cdm
.model
.description
.FeatureTree
;
42 public class PalmaeActivator
{
43 private static final Logger logger
= Logger
.getLogger(PalmaeActivator
.class);
45 //database validation status (create, update, validate ...)
46 static DbSchemaValidation hbm2dll
= DbSchemaValidation
.CREATE
;
47 static final String tcsSource
= TcsSources
.arecaceae_local();
48 static final ICdmDataSource cdmDestination
= CdmDestinations
.localH2Palmae();
50 // set the webserver path to the images
51 private static final String imageUrlString
= "http://wp5.e-taxonomy.eu/media/palmae/photos/";
52 // set the webserver path to the protologues
53 public static final String protologueUrlString
= "http://wp5.e-taxonomy.eu/media/palmae/protologe/";
55 public static final UUID featureTreeUuid
= UUID
.fromString("72ccce05-7cc8-4dab-8e47-bf3f5fd848a0");
57 static final UUID treeUuid
= UUID
.fromString("1adb71d4-cce6-45e1-b578-e668778d9ec6");
58 static final UUID secUuid
= UUID
.fromString("5f32b8af-0c97-48ac-8d33-6099ed68c625");
59 static final String sourceSecId
= "palm_pub_ed_999999";
60 static final boolean pubishReferencesInBibliography
= false;
62 //should the other imports run as well?
63 static final boolean includeTaxonX
= true;
64 static final boolean includeImages
= true;
65 static final boolean includeExcelProtologue
= true;
66 static final boolean includeMediaProtologue
= true;
67 static final boolean updateFeatureTree
= true;
68 static final boolean updateNameUsage
= true;
71 static final CHECK check
= CHECK
.CHECK_AND_IMPORT
;
73 static boolean useClassification
= true;
76 static final boolean doAuthors
= true;
78 static final DO_REFERENCES doReferences
= DO_REFERENCES
.ALL
;
80 static final boolean doTaxonNames
= true;
81 static final boolean doRelNames
= true;
84 static final boolean doTaxa
= true;
85 static final boolean doRelTaxa
= true;
86 static final boolean doFacts
= true;
89 private ImportResult
doImport(ICdmDataSource destination
){
91 System
.out
.println("Start import from Tcs("+ tcsSource
.toString() + ") ...");
96 source
= new URI(tcsSource
);
98 TcsRdfImportConfigurator tcsImportConfigurator
= TcsRdfImportConfigurator
.NewInstance(source
, destination
);
100 tcsImportConfigurator
.setClassificationUuid(treeUuid
);
101 tcsImportConfigurator
.setSecUuid(secUuid
);
102 tcsImportConfigurator
.setSourceSecId(sourceSecId
);
104 tcsImportConfigurator
.setDoReferences(doReferences
);
105 tcsImportConfigurator
.setDoTaxonNames(doTaxonNames
);
106 tcsImportConfigurator
.setDoRelNames(doRelNames
);
108 tcsImportConfigurator
.setDoTaxa(doTaxa
);
109 tcsImportConfigurator
.setDoRelTaxa(doRelTaxa
);
110 tcsImportConfigurator
.setDoFacts(doFacts
);
111 tcsImportConfigurator
.setUseClassification(useClassification
);
112 tcsImportConfigurator
.setPublishReferences(pubishReferencesInBibliography
);
114 tcsImportConfigurator
.setCheck(check
);
115 tcsImportConfigurator
.setDbSchemaValidation(hbm2dll
);
118 CdmDefaultImport
<TcsRdfImportConfigurator
> tcsImport
= new CdmDefaultImport
<TcsRdfImportConfigurator
>();
119 success
= tcsImport
.invoke(tcsImportConfigurator
);
122 logger
.info("Make feature tree");
123 ICdmRepository app
= tcsImport
.getCdmAppController();
125 FeatureTree tree
= getFeatureTree();
126 app
.getFeatureTreeService().saveOrUpdate(tree
);
127 System
.out
.println("End import from TCS ("+ source
.toString() + ")...");
130 } catch (URISyntaxException e
) {
132 success
= new ImportResult();
133 success
.addException(e
);
139 private FeatureTree
getFeatureTree(){
141 FeatureTree result
= FeatureTree
.NewInstance(featureTreeUuid
);
142 FeatureNode root
= result
.getRoot();
145 newNode
= FeatureNode
.NewInstance(Feature
.INTRODUCTION());
146 root
.addChild(newNode
);
147 newNode
= FeatureNode
.NewInstance(Feature
.DISTRIBUTION());
148 root
.addChild(newNode
);
149 newNode
= FeatureNode
.NewInstance(Feature
.BIOLOGY_ECOLOGY());
150 root
.addChild(newNode
);
151 newNode
= FeatureNode
.NewInstance(Feature
.CONSERVATION());
152 root
.addChild(newNode
);
153 newNode
= FeatureNode
.NewInstance(Feature
.COMMON_NAME());
154 root
.addChild(newNode
);
155 newNode
= FeatureNode
.NewInstance(Feature
.ETYMOLOGY());
156 root
.addChild(newNode
);
157 newNode
= FeatureNode
.NewInstance(Feature
.USES());
158 root
.addChild(newNode
);
159 newNode
= FeatureNode
.NewInstance(Feature
.CULTIVATION());
160 root
.addChild(newNode
);
161 newNode
= FeatureNode
.NewInstance(Feature
.DISCUSSION());
162 root
.addChild(newNode
);
163 newNode
= FeatureNode
.NewInstance(Feature
.DIAGNOSIS());
164 root
.addChild(newNode
);
165 newNode
= FeatureNode
.NewInstance(Feature
.DESCRIPTION());
166 root
.addChild(newNode
);
167 newNode
= FeatureNode
.NewInstance(Feature
.MATERIALS_EXAMINED());
168 root
.addChild(newNode
);
169 newNode
= FeatureNode
.NewInstance(Feature
.ANATOMY());
170 root
.addChild(newNode
);
180 public static void main(String
[] args
) {
181 ImportResult success
;
183 logger
.debug("start");
184 ICdmDataSource destination
= CdmDestinations
.chooseDestination(args
) != null ? CdmDestinations
.chooseDestination(args
) : cdmDestination
;
186 PalmaeActivator me
= new PalmaeActivator();
187 me
.doImport(destination
);
190 System
.out
.println("Start importing images ...");
191 CdmDefaultImport
<IImportConfigurator
> imageImporter
= new CdmDefaultImport
<IImportConfigurator
>();
194 folderUri
= new URI(PalmaeImageActivator
.sourceFolderString
);
195 ImageImportConfigurator imageConfigurator
= ImageImportConfigurator
.NewInstance(
196 folderUri
, destination
, imageUrlString
, PalmaeImageImport
.class);
197 imageConfigurator
.setSecUuid(secUuid
);
198 success
= imageImporter
.invoke(imageConfigurator
);
199 System
.out
.println("End importing images ...");
200 } catch (URISyntaxException e
) {
205 if (includeExcelProtologue
){
206 System
.out
.println("Start importing protologues ...");
209 fileUri
= new URI(PalmaeExcelProtologueActivator
.sourceFileString
);
210 ImageImportConfigurator imageConfigurator
= ImageImportConfigurator
.NewInstance(
211 fileUri
, destination
, protologueUrlString
, PalmaeProtologueImport
.class);
212 imageConfigurator
.setSecUuid(secUuid
);
214 CdmDefaultImport
<IImportConfigurator
> imageImporter
= new CdmDefaultImport
<IImportConfigurator
>();
215 imageImporter
.invoke(imageConfigurator
);
216 System
.out
.println("End importing protologues ...");
217 } catch (URISyntaxException e
) {
222 if (includeMediaProtologue
){
223 System
.out
.println("Start importing protologues from \\\\media...");
224 String protologueSource
= PalmaeProtologueImportActivator
.protologueSource
;
225 String urlString
= protologueUrlString
;
227 File source
= new File (protologueSource
);
228 PalmaeProtologueImportConfigurator protologConfig
= PalmaeProtologueImportConfigurator
.NewInstance(source
, destination
, urlString
);
229 CdmDefaultImport
<IImportConfigurator
> cdmImport
= new CdmDefaultImport
<IImportConfigurator
>();
231 //protologConfig.setDoFacts(doDescriptions);
232 protologConfig
.setCheck(check
);
233 protologConfig
.setDbSchemaValidation(DbSchemaValidation
.UPDATE
);
235 success
= cdmImport
.invoke(protologConfig
);
237 System
.out
.println("End importing protologues ...");
241 System
.out
.println("Start importing taxonX ...");
242 PalmaeTaxonXImportActivator taxonXimporter
= new PalmaeTaxonXImportActivator();
243 PalmaeTaxonXImportActivator
.cdmDestination
= destination
;
244 success
= taxonXimporter
.runImport();
245 System
.out
.println("End importing taxonX ...");
248 PalmaePostImportUpdater updater
= new PalmaePostImportUpdater();
249 if (updateFeatureTree
){
250 updater
.updateMissingFeatures(destination
);
253 if (updateNameUsage
){
254 updater
.updateNameUsage(destination
);
258 String strSuccess
= "";
259 if (success
.isSuccess() == false){
262 System
.out
.println("Import " + strSuccess
+ "successful");