app-import/src/main/java/eu/etaxonomy/cdm/app/wp6/cichorieae/CichorieaeActivator.java

   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.app.wp6.cichorieae;
  11
  12 import java.io.File;
  13 import java.util.UUID;
  14
  15 import org.apache.log4j.Logger;
  16
  17 import eu.etaxonomy.cdm.api.application.CdmApplicationController;
  18 import eu.etaxonomy.cdm.app.berlinModelImport.BerlinModelSources;
  19 import eu.etaxonomy.cdm.app.berlinModelImport.TreeCreator;
  20 import eu.etaxonomy.cdm.app.common.CdmDestinations;
  21 import eu.etaxonomy.cdm.app.images.ImageImportConfigurator;
  22 import eu.etaxonomy.cdm.database.DbSchemaValidation;
  23 import eu.etaxonomy.cdm.database.ICdmDataSource;
  24 import eu.etaxonomy.cdm.io.CichorieaeImageImport;
  25 import eu.etaxonomy.cdm.io.berlinModel.in.BerlinModelImportConfigurator;
  26 import eu.etaxonomy.cdm.io.common.CdmDefaultImport;
  27 import eu.etaxonomy.cdm.io.common.IImportConfigurator;
  28 import eu.etaxonomy.cdm.io.common.Source;
  29 import eu.etaxonomy.cdm.io.common.IImportConfigurator.CHECK;
  30 import eu.etaxonomy.cdm.io.common.IImportConfigurator.DO_REFERENCES;
  31 import eu.etaxonomy.cdm.io.common.IImportConfigurator.EDITOR;
  32 import eu.etaxonomy.cdm.model.common.ISourceable;
  33 import eu.etaxonomy.cdm.model.description.Feature;
  34 import eu.etaxonomy.cdm.model.description.FeatureNode;
  35 import eu.etaxonomy.cdm.model.description.FeatureTree;
  36 import eu.etaxonomy.cdm.model.name.NomenclaturalCode;
  37 import eu.etaxonomy.cdm.model.name.ZoologicalName;
  38
  39
  40 /**
  41  * TODO add the following to a wiki page:
  42  * HINT: If you are about to import into a mysql data base running under windows and if you wish to dump and restore the resulting data bas under another operation systen
  43  * you must set the mysql system variable lower_case_table_names = 0 in order to create data base with table compatible names.
  44  *
  45  *
  46  * @author a.mueller
  47  *
  48  */
  49 public class CichorieaeActivator {
  50         private static final Logger logger = Logger.getLogger(CichorieaeActivator.class);
  51
  52         //database validation status (create, update, validate ...)
  53         static DbSchemaValidation hbm2dll = DbSchemaValidation.CREATE;
  54         static final Source berlinModelSource = BerlinModelSources.EDIT_CICHORIEAE();
  55         static final ICdmDataSource cdmDestination = CdmDestinations.cdm_bgbm24_cichorieae_b();
  56
  57         static final UUID secUuid = UUID.fromString("6924c75d-e0d0-4a6d-afb7-3dd8c71195ca");
  58         static final UUID taxonomicTreeUuid = UUID.fromString("534e190f-3339-49ba-95d9-fa27d5493e3e");
  59 //      static final UUID treeUuid = UUID.fromString("00db28a7-50e1-4abc-86ec-b2a8ce870de9");
  60         static final int sourceSecId = 7800000;
  61
  62         static final UUID featureTreeUuid = UUID.fromString("ae9615b8-bc60-4ed0-ad96-897f9226d568");
  63         static final Object[] featureKeyList = new Integer[]{1, 31, 4, 98, 41};
  64
  65         static final String mediaUrlString = "http://wp5.e-taxonomy.eu/dataportal/cichorieae/media/protolog/";
  66         //Mac
  67         //static final File mediaPath = new File("/Volumes/protolog/protolog/");
  68         //Windows
  69         static final File mediaPath = new File("\\\\media\\editwp6\\protolog");
  70         // set to zero for unlimited nameFacts
  71         static final int maximumNumberOfNameFacts = 0;
  72
  73         //should the other imports run as well?
  74         static final boolean includeImages = true;
  75         static final boolean includeTaraxacum = true; // TODO
  76
  77
  78         //check - import
  79         static final CHECK check = CHECK.CHECK_AND_IMPORT;
  80
  81         //editor - import
  82         static final EDITOR editor = EDITOR.EDITOR_AS_EDITOR;
  83
  84         //NomeclaturalCode
  85         static final NomenclaturalCode nomenclaturalCode = NomenclaturalCode.ICBN;
  86
  87         //ignore null
  88         static final boolean ignoreNull = true;
  89
  90         static boolean useTaxonomicTree = true;
  91
  92
  93 // **************** ALL *********************
  94
  95         static final boolean doUser = true;
  96         //authors
  97         static final boolean doAuthors = true;
  98         //references
  99         static final DO_REFERENCES doReferences =  DO_REFERENCES.ALL;
 100         //names
 101         static final boolean doTaxonNames = true;
 102         static final boolean doRelNames = true;
 103         static final boolean doNameStatus = true;
 104         static final boolean doTypes = true;
 105         static final boolean doNameFacts = true;
 106
 107         //taxa
 108         static final boolean doTaxa = true;
 109         static final boolean doRelTaxa = true;
 110         static final boolean doFacts = true;
 111         static final boolean doOccurences = true;
 112
 113         //etc.
 114         static final boolean doMarker = true;
 115
 116
 117 // **************** SELECTED *********************
 118
 119 //      static final boolean doUser = true;
 120 //      //authors
 121 //      static final boolean doAuthors = false;
 122 //      //references
 123 //      static final DO_REFERENCES doReferences =  DO_REFERENCES.NONE;
 124 //      //names
 125 //      static final boolean doTaxonNames = false;
 126 //      static final boolean doRelNames = false;
 127 //      static final boolean doNameStatus = false;
 128 //      static final boolean doTypes = false;
 129 //      static final boolean doNameFacts = false;
 130 //
 131 //      //taxa
 132 //      static final boolean doTaxa = true;
 133 //      static final boolean doRelTaxa = false;
 134 //      static final boolean doFacts = false;
 135 //      static final boolean doOccurences = false;
 136 //
 137 //      //etc.
 138 //      static final boolean doMarker = false;
 139
 140
 141         /**
 142          * @param args
 143          */
 144         public static void main(String[] args) {
 145                 System.out.println("Start import from BerlinModel("+ berlinModelSource.getDatabase() + ") to " + cdmDestination.getDatabase() + " ...");
 146
 147                 //make BerlinModel Source
 148                 Source source = berlinModelSource;
 149                 ICdmDataSource destination = cdmDestination;
 150
 151                 BerlinModelImportConfigurator bmImportConfigurator = BerlinModelImportConfigurator.NewInstance(source,  destination);
 152
 153                 bmImportConfigurator.setTreeUuid(taxonomicTreeUuid);
 154                 bmImportConfigurator.setSourceSecId(sourceSecId);
 155
 156                 bmImportConfigurator.setNomenclaturalCode(nomenclaturalCode);
 157
 158                 bmImportConfigurator.setIgnoreNull(ignoreNull);
 159                 bmImportConfigurator.setDoAuthors(doAuthors);
 160                 bmImportConfigurator.setDoReferences(doReferences);
 161                 bmImportConfigurator.setDoTaxonNames(doTaxonNames);
 162                 bmImportConfigurator.setDoRelNames(doRelNames);
 163                 bmImportConfigurator.setDoNameStatus(doNameStatus);
 164                 bmImportConfigurator.setDoTypes(doTypes);
 165                 bmImportConfigurator.setDoNameFacts(doNameFacts);
 166                 bmImportConfigurator.setUseTaxonomicTree(useTaxonomicTree);
 167
 168                 bmImportConfigurator.setDoTaxa(doTaxa);
 169                 bmImportConfigurator.setDoRelTaxa(doRelTaxa);
 170                 bmImportConfigurator.setDoFacts(doFacts);
 171                 bmImportConfigurator.setDoOccurrence(doOccurences);
 172
 173                 bmImportConfigurator.setDoMarker(doMarker);
 174                 bmImportConfigurator.setDoUser(doUser);
 175                 bmImportConfigurator.setEditor(editor);
 176                 bmImportConfigurator.setDbSchemaValidation(hbm2dll);
 177
 178
 179                 // mediaResourceLocations
 180                 if ( mediaPath.exists() && mediaPath.isDirectory()){
 181                         bmImportConfigurator.setMediaUrl(mediaUrlString);
 182                         bmImportConfigurator.setMediaPath(mediaPath);
 183                 }else{
 184                         logger.warn("Could not configure mediaResourceLocations");
 185                 }
 186
 187                 // maximum number of name facts to import
 188                 bmImportConfigurator.setMaximumNumberOfNameFacts(maximumNumberOfNameFacts);
 189
 190
 191                 bmImportConfigurator.setCheck(check);
 192                 bmImportConfigurator.setEditor(editor);
 193
 194                 // invoke import
 195                 CdmDefaultImport<BerlinModelImportConfigurator> bmImport = new CdmDefaultImport<BerlinModelImportConfigurator>();
 196                 bmImport.invoke(bmImportConfigurator);
 197
 198                 if (doFacts && bmImportConfigurator.getCheck().equals(CHECK.CHECK_AND_IMPORT)  || bmImportConfigurator.getCheck().equals(CHECK.IMPORT_WITHOUT_CHECK)    ){
 199                         CdmApplicationController app = bmImport.getCdmAppController();
 200                         ISourceable obj = app.getCommonService().getSourcedObjectByIdInSource(ZoologicalName.class, "1000027", null);
 201                         logger.info(obj);
 202
 203                         //make feature tree
 204                         FeatureTree tree = TreeCreator.flatTree(featureTreeUuid, bmImportConfigurator.getFeatureMap(), featureKeyList);
 205                         FeatureNode imageNode = FeatureNode.NewInstance(Feature.IMAGE());
 206                         tree.getRoot().addChild(imageNode);
 207                         FeatureNode distributionNode = FeatureNode.NewInstance(Feature.DISTRIBUTION());
 208                         tree.getRoot().addChild(distributionNode, 2);
 209                         app.getDescriptionService().saveFeatureTree(tree);
 210                 }
 211
 212                 System.out.println("End import from BerlinModel ("+ source.getDatabase() + ")...");
 213
 214                 if (includeImages) {
 215                         System.out.println("Start importing images ...");
 216                         CdmDefaultImport<IImportConfigurator> imageImporter = new CdmDefaultImport<IImportConfigurator>();
 217                         ImageImportConfigurator imageConfigurator = ImageImportConfigurator.NewInstance(
 218                                         CichorieaeImageActivator.sourceFolder, cdmDestination, CichorieaeImageImport.class);
 219                         imageConfigurator.setSecUuid(secUuid);
 220                         imageConfigurator.setTreeUuid(taxonomicTreeUuid);
 221                         imageImporter.invoke(imageConfigurator);
 222                         System.out.println("End importing images ...");
 223                 }
 224
 225                 if (includeTaraxacum) {
 226                          logger.warn("Taraxacum import not yet implemented");
 227                          // TODO
 228                 }
 229
 230
 231         }
 232
 233 }