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Revision 892efc69

Added by Andreas Kohlbecker almost 14 years ago

merging /branches/cdmlib/SPRINT-Chichorieae1/ to trunk

View differences:

.gitattributes
12 12 
app-import/src/main/java/eu/etaxonomy/cdm/app/berlinModelImport/SalvadorExport.java -text
13 13 
app-import/src/main/java/eu/etaxonomy/cdm/app/berlinModelImport/TreeCreator.java -text
14 14 
app-import/src/main/java/eu/etaxonomy/cdm/app/common/CdmDestinations.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/app/common/CdmImportSources.java -text
15 16 
app-import/src/main/java/eu/etaxonomy/cdm/app/common/ImportUtils.java -text
16 17 
app-import/src/main/java/eu/etaxonomy/cdm/app/common/TestActivator.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/app/eflora/EfloraSources.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/app/eflora/SapindaceaeActivator.java -text
17 20 
app-import/src/main/java/eu/etaxonomy/cdm/app/excelImport/distribution/CichorieaeDistributionActivator.java -text
18 21 
app-import/src/main/java/eu/etaxonomy/cdm/app/excelImport/taxa/NormalExplicitActivator.java -text
22 
app-import/src/main/java/eu/etaxonomy/cdm/app/globis/GlobisActivator.java -text
19 23 
app-import/src/main/java/eu/etaxonomy/cdm/app/images/AbstractImageImporter.java -text
20 24 
app-import/src/main/java/eu/etaxonomy/cdm/app/images/ImageImportConfigurator.java -text
21 25 
app-import/src/main/java/eu/etaxonomy/cdm/app/images/ImageImportState.java -text
22 26 
app-import/src/main/java/eu/etaxonomy/cdm/app/jaxb/CdmDiffActivator.java -text
23 27 
app-import/src/main/java/eu/etaxonomy/cdm/app/jaxb/JaxbExportActivator.java -text
24 28 
app-import/src/main/java/eu/etaxonomy/cdm/app/jaxb/JaxbImportActivator.java -text
29 
app-import/src/main/java/eu/etaxonomy/cdm/app/pesi/ErmsActivator.java -text
25 30 
app-import/src/main/java/eu/etaxonomy/cdm/app/pesi/EuroMedActivator.java -text
26 31 
app-import/src/main/java/eu/etaxonomy/cdm/app/pesi/FaunaEuropaeaActivator.java -text
27 32 
app-import/src/main/java/eu/etaxonomy/cdm/app/pesi/FaunaEuropaeaSources.java -text
28 33 
app-import/src/main/java/eu/etaxonomy/cdm/app/pesi/PesiDestinations.java -text
29 34 
app-import/src/main/java/eu/etaxonomy/cdm/app/pesi/PesiExportActivator.java -text
30 35 
app-import/src/main/java/eu/etaxonomy/cdm/app/pesi/erms/ErmsActivator.java -text
31 
app-import/src/main/java/eu/etaxonomy/cdm/app/pesi/merging/FaunaEuErmsMergingActivator.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/app/pesi/merging/FaunaEuErmsFindIdenticalNamesActivator.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/app/pesi/merging/FaunaEuErmsMergeActivator.java -text
32 38 
app-import/src/main/java/eu/etaxonomy/cdm/app/pilotOutputHtml/SimpleDescriptionOutput.java -text
33 39 
app-import/src/main/java/eu/etaxonomy/cdm/app/references/EndNoteImportActivator.java -text
34 40 
app-import/src/main/java/eu/etaxonomy/cdm/app/sdd/AnthuriumActivator.java -text
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60 66 
app-import/src/main/java/eu/etaxonomy/cdm/app/wp6/cichorieae/CichorieaeImageActivator.java -text
61 67 
app-import/src/main/java/eu/etaxonomy/cdm/app/wp6/cichorieae/TaraxacumActivator.java -text
62 68 
app-import/src/main/java/eu/etaxonomy/cdm/app/wp6/diptera/DipteraActivator.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/app/wp6/diptera/DipteraCollectionImport.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/app/wp6/diptera/DipteraDistributionParser.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/app/wp6/diptera/DipteraPostImportUpdater.java -text
64 72 
app-import/src/main/java/eu/etaxonomy/cdm/app/wp6/palmae/PalmaeActivator.java -text
65 73 
app-import/src/main/java/eu/etaxonomy/cdm/app/wp6/palmae/PalmaeExcelProtologueActivator.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/app/wp6/palmae/PalmaeImageActivator.java -text
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72 80 
app-import/src/main/java/eu/etaxonomy/cdm/io/PalmaeImageImport.java -text
73 81 
app-import/src/main/java/eu/etaxonomy/cdm/io/PalmaeProtologueImport.java -text
74 82 
app-import/src/main/java/eu/etaxonomy/cdm/io/ProtologueImport.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/io/eflora/sapindaceae/SapindaceaeImportBase.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/io/eflora/sapindaceae/SapindaceaeImportConfigurator.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/io/eflora/sapindaceae/SapindaceaeImportState.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/io/eflora/sapindaceae/SapindaceaeTaxonImport.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/io/globis/GlobisImportBase.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/io/globis/GlobisImportConfigurator.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/io/globis/GlobisImportState.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/io/globis/GlobisReferenceImport.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/io/globis/GlobisTransformer.java -text
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app-import/src/main/java/eu/etaxonomy/cdm/io/globis/validation/GlobisReferenceImportValidator.java -text
75 93 
app-import/src/main/resources/Asteraceae[!!-~]Specimen[!!-~]Images[!!-~]Vienna.xls -text
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app-import/src/main/resources/AsteraceaeSpecimenImagesVienna.mdb -text
77 95 
app-import/src/main/resources/arecaceae.rdf -text
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app-import/src/main/resources/collections/Acronyms.tab -text
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app-import/src/main/resources/distribution/distribution_cich.xls -text
79 98 
app-import/src/main/resources/globis.rdf.xml -text
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app-import/src/main/resources/globis_valid.rdf.xml -text
80 100 
app-import/src/main/resources/images/images_cich.xls -text
81 101 
app-import/src/main/resources/images/images_diptera.xls -text
82 102 
app-import/src/main/resources/images/palmae/KPALM00000001.jpg -text
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1139 1159 
app-import/src/main/resources/taxonX/palm_tc_98882.xml -text
1140 1160 
app-import/src/main/resources/taxonX/palm_tc_98886.xml -text
1141 1161 
app-import/src/main/resources/tcsXmlTest.xml -text
1162 
cdm-server/LICENSE.TXT -text
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cdm-server/ide/eclipse/run[!!-~]cdm-server.jar[!!-~]in[!!-~]debugmode.launch -text
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cdm-server/ide/eclipse/run[!!-~]cdm-server.jar.launch -text
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cdm-server/pom.xml -text
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cdm-server/src/main/assembly/assembly.xml -text
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cdm-server/src/main/installer/lib/ant-deb-task-0.0.1.jar -text
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cdm-server/src/main/installer/linux/Makefile -text
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cdm-server/src/main/installer/linux/build-deb.xml -text
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cdm-server/src/main/installer/linux/cdmserver -text
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cdm-server/src/main/installer/linux/copyright -text
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cdm-server/src/main/installer/linux/postinst -text
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cdm-server/src/main/installer/linux/postrm -text
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cdm-server/src/main/installer/templates/.cdmLibrary/datasources.xml -text
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cdm-server/src/main/installer/templates/copyright -text
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cdm-server/src/main/installer/win32/Launch4JavaCDMSERVER.xml -text
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cdm-server/src/main/installer/win32/cdmserver.nsi -text
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cdm-server/src/main/installer/win32/cdmserver/bin/cdmserver.bat -text
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cdm-server/src/main/java/eu/etaxonomy/cdm/server/Bootloader.java -text
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cdm-server/src/main/java/eu/etaxonomy/cdm/server/CommandOptions.java -text
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cdm-server/src/main/java/eu/etaxonomy/cdm/server/DataSourceProperties.java -text
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cdm-server/src/main/java/eu/etaxonomy/cdm/server/DataSourcePropertyParser.java -text
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cdm-server/src/main/resources/c3p0.properties -text
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cdm-server/src/main/resources/log4j.properties -text
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cdm-server/src/main/webapp/WEB-INF/web.xml -text
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cdm-server/src/main/webapp/css/server.css -text
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cdm-server/src/main/webapp/css/style.css -text
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cdm-server/src/main/webapp/favicon.ico -text
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cdm-server/src/main/webapp/index.html -text
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cdm-server/src/main/webapp/index.jsp -text
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cdm-server/src/main/webapp/js/jquery.js -text
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cdm-server/src/main/webapp/js/jquery.min.js -text
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cdm-server/src/main/webapp/js/oai-pmh-status.js -text
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cdm-server/src/main/webapp/robots.txt -text
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cdmlib-commons/LICENSE.TXT -text
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cdmlib-commons/README.TXT -text
1144 1197 
cdmlib-commons/pom.xml -text
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1148 1201 
cdmlib-commons/src/main/java/eu/etaxonomy/cdm/common/ExcelUtils.java -text
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cdmlib-commons/src/main/java/eu/etaxonomy/cdm/common/FileCopy.java -text
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cdmlib-commons/src/main/java/eu/etaxonomy/cdm/common/ResultWrapper.java -text
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cdmlib-commons/src/main/java/eu/etaxonomy/cdm/common/Tree.java -text
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cdmlib-commons/src/main/java/eu/etaxonomy/cdm/common/TreeNode.java -text
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cdmlib-commons/src/main/java/eu/etaxonomy/cdm/common/XmlHelp.java -text
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cdmlib-commons/src/main/java/eu/etaxonomy/cdm/common/mediaMetaData/AudioMetaData.java -text
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cdmlib-commons/src/main/java/eu/etaxonomy/cdm/common/mediaMetaData/ImageMetaData.java -text
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1199 1254 
cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/BerlinModelNameFactsImport.java -text
1200 1255 
cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/BerlinModelNameStatusImport.java -text
1201 1256 
cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/BerlinModelOccurrenceImport.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/BerlinModelOccurrenceSourceImport.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/BerlinModelRefDetailImport.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/BerlinModelReferenceImport.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/BerlinModelTaxonImport.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/BerlinModelUserImport.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/BerlinModelWebMarkerCategoryImport.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/BerlinModelWebMarkerImport.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/IPartitionedIO.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/ResultSetPartitioner.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/validation/BerlinModelAuthorImportValidator.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/validation/BerlinModelAuthorTeamImportValidator.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/validation/BerlinModelCommonNamesImportValidator.java -text
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1219 1273 
cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/validation/BerlinModelNameFactsImportValidator.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/validation/BerlinModelNameStatusImportValidator.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/validation/BerlinModelOccurrenceImportValidator.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/validation/BerlinModelOccurrenceSourceImportValidator.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/validation/BerlinModelRefDetailImportValidator.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/validation/BerlinModelReferenceImportValidator.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/berlinModel/in/validation/BerlinModelTaxonImportValidator.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/IOValidator.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/IPartitionedIO.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/IPartitionedState.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/IXmlMapper.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/ImportConfiguratorBase.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/ImportHelper.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/ImportStateBase.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/mapping/DbNotYetImplementedMapper.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/mapping/DbSingleAttributeImportMapperBase.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/mapping/IDbImportMapper.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/mapping/IDbImportTransformed.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/mapping/IDbImportTransformer.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/mapping/IInputTransformer.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/mapping/IMappingImport.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/mapping/IXmlMapper.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/mapping/InputTransformerBase.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/mapping/MultipleAttributeMapperBase.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/mapping/UndefinedTransformerMethodException.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/excel/taxa/NormalExplicitRow.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/excel/taxa/TaxonExcelImportState.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/excel/taxa/TaxonExcelImporterBase.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/faunaEuropaea/CdmImportConfigurator.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/faunaEuropaea/CdmImportState.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/faunaEuropaea/FaunaEuropaeaAuthorImport.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/faunaEuropaea/FaunaEuropaeaDistribution.java -text
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cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/faunaEuropaea/FaunaEuropaeaDistributionImport.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/description/MediaKey.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/description/Modifier.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/description/MultiAccessKey.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/description/NameFeature.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/description/NaturalLanguageTerm.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/description/PolytomousKey.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/description/PresenceAbsenceTermBase.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/media/Media.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/media/MediaRepresentation.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/media/MediaRepresentationPart.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/media/MediaUtils.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/media/MovieFile.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/media/ReferencedMedia.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/media/Rights.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/IStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/StrategyBase.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/agent/INomenclaturalAuthorCacheStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/agent/InstitutionDefaultCacheStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/agent/PersonDefaultCacheStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/agent/TeamDefaultCacheStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/common/IIdentifiableEntityCacheStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/common/IdentifiableEntityDefaultCacheStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/common/TermDefaultCacheStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/description/TaxonDescriptionDefaultCacheStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/media/MediaDefaultCacheStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/name/BacterialNameDefaultCacheStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/name/BotanicNameDefaultCacheStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/name/CacheUpdate.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/name/NameCacheStrategyBase.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/name/NonViralNameDefaultCacheStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/name/ZooNameDefaultCacheStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/occurrence/CollectionDefaultCacheStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/reference/ArticleDefaultCacheStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/reference/BookDefaultCacheStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/cache/reference/BookSectionDefaultCacheStrategy.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/parser/NonViralNameParserImpl.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/parser/NonViralNameParserImplRegExBase.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/parser/ParserProblem.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/parser/TaxonNameParserHistory.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/strategy/parser/location/CoordinateConverter.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/validation/Level2.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/validation/Level3.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/validation/annotation/BasionymsMustShareEpithetsAndAuthors.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/validation/annotation/ChildTaxaMustBeLowerRankThanParent.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/validation/annotation/ChildTaxaMustDeriveNameFromParent.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/validation/annotation/ChildTaxaMustNotSkipRanks.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/validation/annotation/CorrectEpithetsForRank.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/validation/annotation/HomotypicSynonymsShouldBelongToGroup.java -text
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cdmlib-model/src/main/java/eu/etaxonomy/cdm/validation/annotation/MustHaveAuthority.java -text
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1941 2003 
cdmlib-model/src/main/java/eu/etaxonomy/cdm/validation/constraint/BasionymsMustShareEpithetsAndAuthorsValidator.java -text
1942 2004 
cdmlib-model/src/main/java/eu/etaxonomy/cdm/validation/constraint/ChildTaxaMustBeLowerRankThanParentValidator.java -text
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1945 2008 
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1946 2009 
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cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/AbstractCategoricalDescriptionBuilder.java -text
2619 2695 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/AbstractQuantitativeDescriptionBuilder.java -text
2620 2696 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/AbstractStringComparator.java -text
......
2650 2726 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/IReferenceService.java -text
2651 2727 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/IService.java -text
2652 2728 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/ITaxonNodeComparator.java -text
2729 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/ITaxonNodeService.java -text
2653 2730 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/ITaxonService.java -text
2654 2731 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/ITaxonTreeService.java -text
2655 2732 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/ITermService.java -text
......
2663 2740 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/MarkerServiceImpl.java -text
2664 2741 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/MediaServiceImpl.java -text
2665 2742 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/NameServiceImpl.java -text
2743 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/NamedAreaNodeComparator.java -text
2744 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/NamedAreaTree.java -text
2666 2745 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/NaturalLanguageGenerator.java -text
2667 2746 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/OccurrenceServiceImpl.java -text
2668 2747 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/ReferenceServiceImpl.java -text
2669 2748 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/ServiceBase.java -text
2670 2749 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/ServiceImpl.java -text
2671 2750 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/TaxonNodeByNameComparator.java -text
2751 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/TaxonNodeServiceImpl.java -text
2672 2752 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/TaxonServiceImpl.java -text
2673 2753 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/TaxonTreeServiceImpl.java -text
2674 2754 
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/TermServiceImpl.java -text
......
2718 2798 
cdmlib-services/src/main/resources/wsdl/LSIDDataServiceSOAPBindings.wsdl -text
2719 2799 
cdmlib-services/src/main/resources/wsdl/LSIDPortTypes.wsdl -text
2720 2800 
cdmlib-services/src/site/site.xml -text
2801 
cdmlib-services/src/test/java/eu/etaxonomy/cdm/api/facade/SpecimenFacadeCacheStrategyTest.java -text
2802 
cdmlib-services/src/test/java/eu/etaxonomy/cdm/api/facade/SpecimenFacadeTest.java -text
2721 2803 
cdmlib-services/src/test/java/eu/etaxonomy/cdm/api/service/CommonServiceImplTest.java -text
2722 2804 
cdmlib-services/src/test/java/eu/etaxonomy/cdm/api/service/DescriptionServiceImplTest.java -text
2723 2805 
cdmlib-services/src/test/java/eu/etaxonomy/cdm/api/service/MediaServiceImplTest.java -text
......
2732 2814 
cdmlib-services/src/test/java/eu/etaxonomy/cdm/api/service/lsid/LSIDMetadataServiceTest.java -text
2733 2815 
cdmlib-services/src/test/java/eu/etaxonomy/cdm/api/service/lsid/LSIDRegistryTest.java -text
2734 2816 
cdmlib-services/src/test/java/eu/etaxonomy/cdm/api/service/pager/PagerTest.java -text
2817 
cdmlib-services/src/test/java/eu/etaxonomy/cdm/scripts/FixMultipleTextDataInImageGalleries.java -text
2735 2818 
cdmlib-services/src/test/java/eu/etaxonomy/cdm/test/function/Datasource.java -text
2736 2819 
cdmlib-services/src/test/java/eu/etaxonomy/cdm/test/function/TestAgentService.java -text
2737 2820 
cdmlib-services/src/test/java/eu/etaxonomy/cdm/test/function/TestC3P0Configuration.java -text
......
2796 2879 
eclipse-plugin/asm.jar -text
2797 2880 
eclipse-plugin/aspectjrt-1.6.3.jar -text
2798 2881 
eclipse-plugin/aspectjtools-1.6.3.jar -text
2799 
eclipse-plugin/aspectjweaver-1.5.4.jar -text
2800 2882 
eclipse-plugin/aspectjweaver-1.6.3.jar -text
2801 2883 
eclipse-plugin/build.properties -text
2802 2884 
eclipse-plugin/build_ant.xml -text
2885 
eclipse-plugin/c3p0-0.9.1.jar -text
2886 
eclipse-plugin/c3p0-0.9.1src.zip -text
2803 2887 
eclipse-plugin/cglib-2.1.3.jar -text
2804 2888 
eclipse-plugin/commons-beanutils-1.7.0.jar -text
2805 2889 
eclipse-plugin/commons-beanutils-1.7.0src.zip -text
......
2869 2953 
eclipse-plugin/mysql-connector-java-3.1.14-bin.jar -text
2870 2954 
eclipse-plugin/opencsv-1.8.jar -text
2871 2955 
eclipse-plugin/org.apache.commons.codec-1.3.0.jar -text
2872 
eclipse-plugin/org.springframework.aop-3.0.0.RC1.jar -text
2873 
eclipse-plugin/org.springframework.aop-3.0.0.RC1src.zip -text
2874 
eclipse-plugin/org.springframework.asm-3.0.0.RC1.jar -text
2875 
eclipse-plugin/org.springframework.asm-3.0.0.RC1src.zip -text
2876 
eclipse-plugin/org.springframework.aspects-3.0.0.RC1.jar -text
2877 
eclipse-plugin/org.springframework.aspects-3.0.0.RC1src.zip -text
2878 
eclipse-plugin/org.springframework.beans-3.0.0.RC1.jar -text
2879 
eclipse-plugin/org.springframework.beans-3.0.0.RC1src.zip -text
2880 
eclipse-plugin/org.springframework.context-3.0.0.RC1.jar -text
2881 
eclipse-plugin/org.springframework.context-3.0.0.RC1src.zip -text
2882 
eclipse-plugin/org.springframework.core-3.0.0.RC1.jar -text
2883 
eclipse-plugin/org.springframework.core-3.0.0.RC1src.zip -text
2884 
eclipse-plugin/org.springframework.expression-3.0.0.RC1.jar -text
2885 
eclipse-plugin/org.springframework.expression-3.0.0.RC1src.zip -text
2886 
eclipse-plugin/org.springframework.jdbc-3.0.0.RC1.jar -text
2887 
eclipse-plugin/org.springframework.jdbc-3.0.0.RC1src.zip -text
2888 
eclipse-plugin/org.springframework.orm-3.0.0.RC1.jar -text
2889 
eclipse-plugin/org.springframework.orm-3.0.0.RC1src.zip -text
2956 
eclipse-plugin/org.springframework.aop-3.0.0.RELEASE.jar -text
2957 
eclipse-plugin/org.springframework.aop-3.0.0.RELEASEsrc.zip -text
2958 
eclipse-plugin/org.springframework.asm-3.0.0.RELEASE.jar -text
2959 
eclipse-plugin/org.springframework.asm-3.0.0.RELEASEsrc.zip -text
2960 
eclipse-plugin/org.springframework.aspects-3.0.0.RELEASE.jar -text
2961 
eclipse-plugin/org.springframework.aspects-3.0.0.RELEASEsrc.zip -text
2962 
eclipse-plugin/org.springframework.beans-3.0.0.RELEASE.jar -text
2963 
eclipse-plugin/org.springframework.beans-3.0.0.RELEASEsrc.zip -text
2964 
eclipse-plugin/org.springframework.context-3.0.0.RELEASE.jar -text
2965 
eclipse-plugin/org.springframework.context-3.0.0.RELEASEsrc.zip -text
2966 
eclipse-plugin/org.springframework.core-3.0.0.RELEASE.jar -text
2967 
eclipse-plugin/org.springframework.core-3.0.0.RELEASEsrc.zip -text
2968 
eclipse-plugin/org.springframework.expression-3.0.0.RELEASE.jar -text
2969 
eclipse-plugin/org.springframework.expression-3.0.0.RELEASEsrc.zip -text
2970 
eclipse-plugin/org.springframework.jdbc-3.0.0.RELEASE.jar -text
2971 
eclipse-plugin/org.springframework.jdbc-3.0.0.RELEASEsrc.zip -text
2972 
eclipse-plugin/org.springframework.orm-3.0.0.RELEASE.jar -text
2973 
eclipse-plugin/org.springframework.orm-3.0.0.RELEASEsrc.zip -text
2890 2974 
eclipse-plugin/org.springframework.oxm-3.0.0.RC1.jar -text
2891 2975 
eclipse-plugin/org.springframework.oxm-3.0.0.RC1src.zip -text
2892 
eclipse-plugin/org.springframework.test-3.0.0.RC1.jar -text
2893 
eclipse-plugin/org.springframework.test-3.0.0.RC1src.zip -text
2894 
eclipse-plugin/org.springframework.transaction-3.0.0.RC1.jar -text
2895 
eclipse-plugin/org.springframework.transaction-3.0.0.RC1src.zip -text
2976 
eclipse-plugin/org.springframework.oxm-3.0.0.RELEASE.jar -text
2977 
eclipse-plugin/org.springframework.oxm-3.0.0.RELEASEsrc.zip -text
2978 
eclipse-plugin/org.springframework.test-3.0.0.RELEASE.jar -text
2979 
eclipse-plugin/org.springframework.test-3.0.0.RELEASEsrc.zip -text
2980 
eclipse-plugin/org.springframework.transaction-3.0.0.RELEASE.jar -text
2981 
eclipse-plugin/org.springframework.transaction-3.0.0.RELEASEsrc.zip -text
2896 2982 
eclipse-plugin/plugin.xml -text
2897 2983 
eclipse-plugin/poi-3.1-FINAL.jar -text
2898 2984 
eclipse-plugin/pom.xml -text
.gitignore
1 
/*.project
1 2 
/.metadata
2 3 
app-import/.classpath
3 4 
app-import/.project
app-import/pom.xml
7 7 
  <parent>
8 8 
    <groupId>eu.etaxonomy</groupId>
9 9 
    <artifactId>cdmlib-parent</artifactId>
10 
    <version>2.3</version>
10 
    <version>2.4</version>
11 11 
  </parent>
12 12
13 13 
  <modelVersion>4.0.0</modelVersion>
app-import/src/main/java/eu/etaxonomy/cdm/app/abcdImport/SynthesysCacheActivator.java
221 221 
		try {
222 222 
			ReferenceFactory refFactory = ReferenceFactory.newInstance();
223 223 
			ReferenceBase sec = refFactory.newDatabase();
224 
			sec.setTitleCache("SYNTHESYS CACHE DATA");
224 
			sec.setTitleCache("SYNTHESYS CACHE DATA", true);
225 225 

  		




  226
  226
  
    
			/**


  		




  227
  227
  
    
			 * SPECIMEN OR OBSERVATION OR LIVING


  		




  ......




  438
  438
  
    
					System.out.println("a trouve l'agent");


  		




  439
  439
  
    
				}catch (Exception e) {


  		




  440
  440
  
    
					collector = Person.NewInstance();


  		




  441
  
  
    
					collector.setTitleCache(collName);


  		




  
  441
  
    
					collector.setTitleCache(collName, true);


  		




  442
  442
  
    
				}


  		




  443
  443
  
    
				gatheringEvent.setCollector(collector);


  		




  444
  444
  
    
			}


  		












  

    
      app-import/src/main/java/eu/etaxonomy/cdm/app/berlinModelImport/AlgaTerraActivator.java
    
  





  17
  17
  
    
import eu.etaxonomy.cdm.database.DbSchemaValidation;


  		




  18
  18
  
    
import eu.etaxonomy.cdm.database.ICdmDataSource;


  		




  19
  19
  
    
import eu.etaxonomy.cdm.io.berlinModel.in.BerlinModelImportConfigurator;


  		




  20
  
  
    
import eu.etaxonomy.cdm.io.common.IImportConfigurator.CHECK;


  		




  21
  
  
    
import eu.etaxonomy.cdm.io.common.IImportConfigurator.DO_REFERENCES;


  		




  22
  20
  
    
import eu.etaxonomy.cdm.io.common.CdmDefaultImport;


  		




  23
  21
  
    
import eu.etaxonomy.cdm.io.common.Source;


  		




  24
  
  
    
import eu.etaxonomy.cdm.io.tcsrdf.TcsRdfImportConfigurator;


  		




  
  22
  
    
import eu.etaxonomy.cdm.io.common.IImportConfigurator.CHECK;


  		




  
  23
  
    
import eu.etaxonomy.cdm.io.common.IImportConfigurator.DO_REFERENCES;


  		




  25
  24
  
    
import eu.etaxonomy.cdm.model.name.NomenclaturalCode;


  		




  26
  25
  
    

  		




  27
  26
  
    

  		




  ......




  72
  71
  
    
	static final boolean doRelTaxa = true;


  		




  73
  72
  
    
	static final boolean doFacts = true;


  		




  74
  73
  
    
	static final boolean doOccurences = false;


  		




  
  74
  
    
	static final boolean doCommonNames = false;


  		




  75
  75
  
    

  		




  76
  76
  
    
// ************************ NONE **************************************** //


  		




  77
  77
  
    
	


  		




  ......




  122
  122
  
    
		bmImportConfigurator.setDoRelTaxa(doRelTaxa);


  		




  123
  123
  
    
		bmImportConfigurator.setDoFacts(doFacts);


  		




  124
  124
  
    
		bmImportConfigurator.setDoOccurrence(doOccurences);


  		




  
  125
  
    
		bmImportConfigurator.setDoCommonNames(doCommonNames);


  		




  
  126
  
    
		


  		




  125
  127
  
    
		bmImportConfigurator.setDbSchemaValidation(hbm2dll);


  		




  126
  128
  
    

  		




  127
  129
  
    
		bmImportConfigurator.setCheck(check);


  		












  

    
      app-import/src/main/java/eu/etaxonomy/cdm/app/berlinModelImport/SalvadorActivator.java
    
  





  82
  82
  
    
	static final boolean doRelTaxa = true;


  		




  83
  83
  
    
	static final boolean doFacts = true;


  		




  84
  84
  
    
	static final boolean doOccurences = false; //Occurrences do not exist in El_Salvador DB


  		




  
  85
  
    
	static final boolean doCommonNames = false; //CommonNames do not exist in Salvador DB


  		




  85
  86
  
    
	


  		




  86
  87
  
    
	//etc.


  		




  87
  88
  
    
	static final boolean doMarker = true;


  		




  ......




  138
  139
  
    
		config.setDoRelTaxa(doRelTaxa);


  		




  139
  140
  
    
		config.setDoFacts(doFacts);


  		




  140
  141
  
    
		config.setDoOccurrence(doOccurences);


  		




  
  142
  
    
		config.setDoCommonNames(doCommonNames);


  		




  141
  143
  
    
		


  		




  142
  144
  
    
		config.setDoMarker(doMarker);


  		




  143
  145
  
    
		config.setDoUser(doUser);


  		












  

    
      app-import/src/main/java/eu/etaxonomy/cdm/app/berlinModelImport/TreeCreator.java
    
  





  9
  9
  
    

  		




  10
  10
  
    
package eu.etaxonomy.cdm.app.berlinModelImport;


  		




  11
  11
  
    

  		




  
  12
  
    
import java.util.HashMap;


  		




  
  13
  
    
import java.util.Map;


  		




  12
  14
  
    
import java.util.UUID;


  		




  13
  15
  
    

  		




  14
  16
  
    
import org.apache.log4j.Logger;


  		




  ......




  27
  29
  
    
	@SuppressWarnings("unused")


  		




  28
  30
  
    
	private static final Logger logger = Logger.getLogger(TreeCreator.class);


  		




  29
  31
  
    

  		




  30
  
  
    
	public static FeatureTree flatTree(UUID featureTreeUuid, MapWrapper<Feature> featureMap, Object[] featureKeyList){


  		




  
  32
  
    
	public static FeatureTree flatTree(UUID featureTreeUuid, Map<Integer, Feature> featureMap, Object[] featureKeyList){


  		




  31
  33
  
    
		FeatureTree result = FeatureTree.NewInstance(featureTreeUuid);


  		




  32
  34
  
    
		FeatureNode root = result.getRoot();


  		




  33
  35
  
    
		


  		




  ......




  46
  48
  
    
	 * @param args


  		




  47
  49
  
    
	 */


  		




  48
  50
  
    
	public static void main(String[] args) {


  		




  49
  
  
    
		MapWrapper<Feature> map = new MapWrapper<Feature>(null);


  		




  
  51
  
    
		Map<Integer, Feature>  map = new HashMap<Integer, Feature>(null);


  		




  50
  52
  
    
		map.put(1, Feature.DISTRIBUTION());


  		




  51
  53
  
    
		map.put(2, Feature.ECOLOGY());


  		




  52
  54
  
    

  		












  

    
      app-import/src/main/java/eu/etaxonomy/cdm/app/common/CdmDestinations.java
    
  





  43
  43
  
    
	/**


  		




  44
  44
  
    
	 * Intended to be used for imports


  		




  45
  45
  
    
	 */


  		




  
  46
  
    
	public static ICdmDataSource import_a(){


  		




  
  47
  
    
		DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;


  		




  
  48
  
    
		String cdmServer = "localhost";


  		




  
  49
  
    
		String cdmDB = "import_a";


  		




  
  50
  
    
		String cdmUserName = "root";


  		




  
  51
  
    
		return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null);


  		




  
  52
  
    
	}


  		




  
  53
  
    
	


  		




  46
  54
  
    
	public static ICdmDataSource cdm_import(){


  		




  47
  55
  
    
		DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;


  		




  48
  56
  
    
		String cdmServer = "192.168.2.10";


  		




  ......




  75
  83
  
    
		return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null);


  		




  76
  84
  
    
	}


  		




  77
  85
  
    

  		




  78
  
  
    
	public static ICdmDataSource cdm_test_andreas_diptera(){


  		




  79
  
  
    
		DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;


  		




  80
  
  
    
		String cdmServer = "192.168.2.10";


  		




  81
  
  
    
		String cdmDB = "cdm_test_andreas_diptera"; 


  		




  82
  
  
    
		String cdmUserName = "edit";


  		




  83
  
  
    
		return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null);


  		




  84
  
  
    
	}


  		




  85
  86
  
    
	


  		




  86
  87
  
    
	public static ICdmDataSource cdm_test_andreas_palmae(){


  		




  87
  88
  
    
		DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;


  		




  ......




  271
  272
  
    
		return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null);


  		




  272
  273
  
    
	}


  		




  273
  274
  
    
	


  		




  
  275
  
    
	public static ICdmDataSource cdm_local_cichorieae_d(){


  		




  
  276
  
    
		DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;


  		




  
  277
  
    
		String cdmServer = "127.0.0.1";


  		




  
  278
  
    
		String cdmDB = "cdm_edit_cichorieae_d";


  		




  
  279
  
    
		String cdmUserName = "root";


  		




  
  280
  
    
		return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null);


  		




  
  281
  
    
	}


  		




  
  282
  
    
	


  		




  
  283
  
    
	/* ========= For connections through ssh tunnels ============== */


  		




  
  284
  
    
	


  		




  
  285
  
    

  		




  
  286
  
    
	public static ICdmDataSource cdm_tunnel_palmae_a(){


  		




  
  287
  
    
		DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;


  		




  
  288
  
    
		String cdmServer = "127.0.0.1";


  		




  
  289
  
    
		String cdmDB = "cdm_edit_palmae_a";


  		




  
  290
  
    
		String cdmUserName = "edit";


  		




  
  291
  
    
		return makeDestination(dbType, cdmServer, cdmDB, 13306, cdmUserName, null);


  		




  
  292
  
    
	}


  		




  
  293
  
    
	


  		




  
  294
  
    
	public static ICdmDataSource cdm_tunnel_cichorieae_a(){


  		




  
  295
  
    
		DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;


  		




  
  296
  
    
		String cdmServer = "127.0.0.1";


  		




  
  297
  
    
		String cdmDB = "cdm_edit_cichorieae_a";


  		




  
  298
  
    
		String cdmUserName = "edit";


  		




  
  299
  
    
		return makeDestination(dbType, cdmServer, cdmDB, 13306, cdmUserName, null);


  		




  
  300
  
    
	}


  		




  
  301
  
    
	


  		




  
  302
  
    
	public static ICdmDataSource cdm_tunnel_dipera_a(){


  		




  
  303
  
    
		DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;


  		




  
  304
  
    
		String cdmServer = "127.0.0.1";


  		




  
  305
  
    
		String cdmDB = "cdm_edit_diptera_a";


  		




  
  306
  
    
		String cdmUserName = "root";


  		




  
  307
  
    
		return makeDestination(dbType, cdmServer, cdmDB, 13306, cdmUserName, null);


  		




  
  308
  
    
	}


  		




  
  309
  
    
	


  		




  
  310
  
    
	public static ICdmDataSource cdm_tunnel_palmae_b(){


  		




  
  311
  
    
		DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;


  		




  
  312
  
    
		String cdmServer = "127.0.0.1";


  		




  
  313
  
    
		String cdmDB = "cdm_edit_palmae_b";


  		




  
  314
  
    
		String cdmUserName = "edit";


  		




  
  315
  
    
		return makeDestination(dbType, cdmServer, cdmDB, 13306, cdmUserName, null);


  		




  
  316
  
    
	}


  		




  
  317
  
    
	


  		




  
  318
  
    
	public static ICdmDataSource cdm_tunnel_cichorieae_b(){


  		




  
  319
  
    
		DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;


  		




  
  320
  
    
		String cdmServer = "127.0.0.1";


  		




  
  321
  
    
		String cdmDB = "cdm_edit_cichorieae_b";


  		




  
  322
  
    
		String cdmUserName = "edit";


  		




  
  323
  
    
		return makeDestination(dbType, cdmServer, cdmDB, 13306, cdmUserName, null);


  		




  
  324
  
    
	}


  		




  
  325
  
    
	


  		




  
  326
  
    
	public static ICdmDataSource cdm_tunnel_dipera_b(){


  		




  
  327
  
    
		DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;


  		




  
  328
  
    
		String cdmServer = "127.0.0.1";


  		




  
  329
  
    
		String cdmDB = "cdm_edit_diptera_b";


  		




  
  330
  
    
		String cdmUserName = "edit";


  		




  
  331
  
    
		return makeDestination(dbType, cdmServer, cdmDB, 13306, cdmUserName, null);


  		




  
  332
  
    
	}


  		




  
  333
  
    
	


  		




  
  334
  
    
	public static ICdmDataSource cdm_tunnel_dichorieae_d(){


  		




  
  335
  
    
		DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;


  		




  
  336
  
    
		String cdmServer = "127.0.0.1";


  		




  
  337
  
    
		String cdmDB = "cdm_edit_cichorieae_d";


  		




  
  338
  
    
		String cdmUserName = "edit";


  		




  
  339
  
    
		return makeDestination(dbType, cdmServer, cdmDB, 13306, cdmUserName, null);


  		




  
  340
  
    
	}


  		




  
  341
  
    
	


  		




  
  342
  
    
	


  		




  
  343
  
    

  		




  
  344
  
    
	


  		




  
  345
  
    

  		




  274
  346
  
    
	public static ICdmDataSource NULL(){


  		




  275
  347
  
    
		return null;


  		




  276
  348
  
    
	}


  		












  

    
      app-import/src/main/java/eu/etaxonomy/cdm/app/common/CdmImportSources.java
    
  





  
  1
  
    
// $Id$


  		




  
  2
  
    
/**


  		




  
  3
  
    
* Copyright (C) 2009 EDIT


  		




  
  4
  
    
* European Distributed Institute of Taxonomy 


  		




  
  5
  
    
* http://www.e-taxonomy.eu


  		




  
  6
  
    
* 


  		




  
  7
  
    
* The contents of this file are subject to the Mozilla Public License Version 1.1


  		




  
  8
  
    
* See LICENSE.TXT at the top of this package for the full license terms.


  		




  
  9
  
    
*/


  		




  
  10
  
    
package eu.etaxonomy.cdm.app.common;


  		




  
  11
  
    

  		




  
  12
  
    
import org.apache.log4j.Logger;


  		




  
  13
  
    

  		




  
  14
  
    
import eu.etaxonomy.cdm.common.AccountStore;


  		




  
  15
  
    
import eu.etaxonomy.cdm.io.common.Source;


  		




  
  16
  
    

  		




  
  17
  
    
/**


  		




  
  18
  
    
 * @author a.mueller


  		




  
  19
  
    
 * @date 21.04.2010


  		




  
  20
  
    
 *


  		




  
  21
  
    
 */


  		




  
  22
  
    
public class CdmImportSources {


  		




  
  23
  
    
	@SuppressWarnings("unused")


  		




  
  24
  
    
	private static final Logger logger = Logger.getLogger(CdmImportSources.class);


  		




  
  25
  
    
	


  		




  
  26
  
    
	


  		




  
  27
  
    
	public static Source GLOBIS(){


  		




  
  28
  
    
		//	BerlinModel - Pesi-ERMS


  		




  
  29
  
    
		String dbms = Source.SQL_SERVER_2005;


  		




  
  30
  
    
		String strServer = "LENOVO-T61";


  		




  
  31
  
    
		String strDB = "globis";


  		




  
  32
  
    
		int port = 1433;


  		




  
  33
  
    
		String userName = "adam";


  		




  
  34
  
    
		return  makeSource(dbms, strServer, strDB, port, userName, null);


  		




  
  35
  
    
	}


  		




  
  36
  
    
	


  		




  
  37
  
    
	public static Source GLOBIS_ODBC(){


  		




  
  38
  
    
		//	BerlinModel - Pesi-ERMS


  		




  
  39
  
    
		String dbms = Source.ODDBC;


  		




  
  40
  
    
		String strServer = "LENOVO-T61";


  		




  
  41
  
    
		String strDB = "globis";


  		




  
  42
  
    
		int port = 1433;


  		




  
  43
  
    
		String userName = "sa";


  		




  
  44
  
    
		return  makeSource(dbms, strServer, strDB, port, userName, null);


  		




  
  45
  
    
	}


  		




  
  46
  
    
	


  		




  
  47
  
    
	


  		




  
  48
  
    
	/**


  		




  
  49
  
    
	 * Initializes the source.


  		




  
  50
  
    
	 * @param dbms


  		




  
  51
  
    
	 * @param strServer


  		




  
  52
  
    
	 * @param strDB


  		




  
  53
  
    
	 * @param port


  		




  
  54
  
    
	 * @param userName


  		




  
  55
  
    
	 * @param pwd


  		




  
  56
  
    
	 * @return the source


  		




  
  57
  
    
	 */


  		




  
  58
  
    
	private static Source makeSource(String dbms, String strServer, String strDB, int port, String userName, String pwd ){


  		




  
  59
  
    
		//establish connection


  		




  
  60
  
    
		Source source = null;


  		




  
  61
  
    
		source = new Source(dbms, strServer, strDB);


  		




  
  62
  
    
		source.setPort(port);


  		




  
  63
  
    
			


  		




  
  64
  
    
		pwd = AccountStore.readOrStorePassword(dbms, strServer, userName, pwd);


  		




  
  65
  
    
		source.setUserAndPwd(userName, pwd);


  		




  
  66
  
    
		// write pwd to account store


  		




  
  67
  
    
		return source;


  		




  
  68
  
    
	}


  		




  
  69
  
    
}


  		












  

    
      app-import/src/main/java/eu/etaxonomy/cdm/app/eflora/EfloraSources.java
    
  





  
  1
  
    
// $Id$


  		




  
  2
  
    
/**


  		




  
  3
  
    
* Copyright (C) 2009 EDIT


  		




  
  4
  
    
* European Distributed Institute of Taxonomy 


  		




  
  5
  
    
* http://www.e-taxonomy.eu


  		




  
  6
  
    
* 


  		




  
  7
  
    
* The contents of this file are subject to the Mozilla Public License Version 1.1


  		




  
  8
  
    
* See LICENSE.TXT at the top of this package for the full license terms.


  		




  
  9
  
    
*/


  		




  
  10
  
    
package eu.etaxonomy.cdm.app.eflora;


  		




  
  11
  
    

  		




  
  12
  
    
import org.apache.log4j.Logger;


  		




  
  13
  
    

  		




  
  14
  
    
/**


  		




  
  15
  
    
 * @author a.mueller


  		




  
  16
  
    
 * @date 09.06.2010


  		




  
  17
  
    
 *


  		




  
  18
  
    
 */


  		




  
  19
  
    
public class EfloraSources {


  		




  
  20
  
    
	@SuppressWarnings("unused")


  		




  
  21
  
    
	private static final Logger logger = Logger.getLogger(EfloraSources.class);


  		




  
  22
  
    

  		




  
  23
  
    
	


  		




  
  24
  
    
	public static String sapindaceae_local(){


  		




  
  25
  
    
		//		Sapindaceae


  		




  
  26
  
    
		String sourceUrl = "file:C:/localCopy/Data/eflora/sapindaceae/sapindaceae-01.xml";


  		




  
  27
  
    
//		URL url = new SDDSources().getClass().getResource("/taxonX/palm_tn_29336.xml");


  		




  
  28
  
    
//		String sourceUrl = url.toString();


  		




  
  29
  
    
		return sourceUrl;


  		




  
  30
  
    
	}


  		




  
  31
  
    
}


  		












  

    
      app-import/src/main/java/eu/etaxonomy/cdm/app/eflora/SapindaceaeActivator.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.eflora;


  		




  
  11
  
    

  		




  
  12
  
    
import java.util.UUID;


  		




  
  13
  
    

  		




  
  14
  
    
import org.apache.log4j.Logger;


  		




  
  15
  
    

  		




  
  16
  
    
import eu.etaxonomy.cdm.api.service.IReferenceService;


  		




  
  17
  
    
import eu.etaxonomy.cdm.app.common.CdmDestinations;


  		




  
  18
  
    
import eu.etaxonomy.cdm.database.DbSchemaValidation;


  		




  
  19
  
    
import eu.etaxonomy.cdm.database.ICdmDataSource;


  		




  
  20
  
    
import eu.etaxonomy.cdm.io.common.CdmDefaultImport;


  		




  
  21
  
    
import eu.etaxonomy.cdm.io.common.IImportConfigurator.CHECK;


  		




  
  22
  
    
import eu.etaxonomy.cdm.io.common.IImportConfigurator.DO_REFERENCES;


  		




  
  23
  
    
import eu.etaxonomy.cdm.io.eflora.sapindaceae.SapindaceaeImportConfigurator;


  		




  
  24
  
    
import eu.etaxonomy.cdm.model.common.TimePeriod;


  		




  
  25
  
    
import eu.etaxonomy.cdm.model.reference.IBook;


  		




  
  26
  
    
import eu.etaxonomy.cdm.model.reference.ReferenceBase;


  		




  
  27
  
    
import eu.etaxonomy.cdm.model.reference.ReferenceFactory;


  		




  
  28
  
    

  		




  
  29
  
    
/**


  		




  
  30
  
    
 * @author a.mueller


  		




  
  31
  
    
 * @created 20.06.2008


  		




  
  32
  
    
 * @version 1.0


  		




  
  33
  
    
 */


  		




  
  34
  
    
public class SapindaceaeActivator {


  		




  
  35
  
    
	private static final Logger logger = Logger.getLogger(SapindaceaeActivator.class);


  		




  
  36
  
    
	


  		




  
  37
  
    
	//database validation status (create, update, validate ...)


  		




  
  38
  
    
	static DbSchemaValidation hbm2dll = DbSchemaValidation.CREATE;


  		




  
  39
  
    
	static final String sapSource = EfloraSources.sapindaceae_local();


  		




  
  40
  
    
	static final ICdmDataSource cdmDestination = CdmDestinations.cdm_test_andreasM2();


  		




  
  41
  
    
//	static final ICdmDataSource cdmDestination = CdmDestinations.localH2();


  		




  
  42
  
    

  		




  
  43
  
    
	static final UUID treeUuid = UUID.fromString("ca4e4bcb-a1d1-4124-a358-a3d3c41dd450");


  		




  
  44
  
    
	


  		




  
  45
  
    
	//check - import


  		




  
  46
  
    
	static final CHECK check = CHECK.CHECK_AND_IMPORT;


  		




  
  47
  
    
	


  		




  
  48
  
    
	//authors


  		




  
  49
  
    
	static final boolean doMetaData = true;


  		




  
  50
  
    
	//references


  		




  
  51
  
    
	static final DO_REFERENCES doReferences =  DO_REFERENCES.ALL;


  		




  
  52
  
    
	//names


  		




  
  53
  
    
	static final boolean doTaxonNames = true;


  		




  
  54
  
    
	static final boolean doRelNames = true;


  		




  
  55
  
    
	


  		




  
  56
  
    
	//taxa


  		




  
  57
  
    
	static final boolean doTaxa = true;


  		




  
  58
  
    
	static final boolean doRelTaxa = true;


  		




  
  59
  
    

  		




  
  60
  
    
	


  		




  
  61
  
    
	private void doImport(){


  		




  
  62
  
    
		System.out.println("Start import from ("+ sapSource.toString() + ") ...");


  		




  
  63
  
    
		


  		




  
  64
  
    
		//make BerlinModel Source


  		




  
  65
  
    
		String source = sapSource;


  		




  
  66
  
    
		ICdmDataSource destination = cdmDestination;


  		




  
  67
  
    
		


  		




  
  68
  
    
		SapindaceaeImportConfigurator sapindaceaeImportConfigurator = SapindaceaeImportConfigurator.NewInstance(source,  destination);


  		




  
  69
  
    
		


  		




  
  70
  
    
		sapindaceaeImportConfigurator.setTaxonomicTreeUuid(treeUuid);


  		




  
  71
  
    
		


  		




  
  72
  
    
//		sapindaceaeImportConfigurator.setDoMetaData(doMetaData);


  		




  
  73
  
    
		sapindaceaeImportConfigurator.setDoReferences(doReferences);


  		




  
  74
  
    
		sapindaceaeImportConfigurator.setDoTaxonNames(doTaxonNames);


  		




  
  75
  
    
		sapindaceaeImportConfigurator.setDoRelNames(doRelNames);


  		




  
  76
  
    
		


  		




  
  77
  
    
		sapindaceaeImportConfigurator.setDoTaxa(doTaxa);


  		




  
  78
  
    
		sapindaceaeImportConfigurator.setDoRelTaxa(doRelTaxa);


  		




  
  79
  
    
		


  		




  
  80
  
    
		sapindaceaeImportConfigurator.setCheck(check);


  		




  
  81
  
    
		sapindaceaeImportConfigurator.setDbSchemaValidation(hbm2dll);


  		




  
  82
  
    

  		




  
  83
  
    
		// invoke import


  		




  
  84
  
    
		CdmDefaultImport<SapindaceaeImportConfigurator> myImport = new CdmDefaultImport<SapindaceaeImportConfigurator>();


  		




  
  85
  
    
		myImport.invoke(sapindaceaeImportConfigurator);


  		




  
  86
  
    
		


  		




  
  87
  
    
		


  		




  
  88
  
    
//		IReferenceService refService = myImport.getCdmAppController().getReferenceService();


  		




  
  89
  
    
//		ReferenceFactory refFactory = ReferenceFactory.newInstance();


  		




  
  90
  
    
//		IBook book = refFactory.newBook();


  		




  
  91
  
    
//		//book.setDatePublished(TimePeriod.NewInstance(1945));


  		




  
  92
  
    
//		book.setDatePublished(TimePeriod.NewInstance(1945).setEndDay(12).setEndMonth(4));


  		




  
  93
  
    
//		refService.saveOrUpdate((ReferenceBase)book);


  		




  
  94
  
    
//		myImport.getCdmAppController().close();


  		




  
  95
  
    
//		logger.info("End");


  		




  
  96
  
    
		System.out.println("End import from ("+ sapSource.toString() + ")...");


  		




  
  97
  
    
	}


  		




  
  98
  
    

  		




  
  99
  
    
	/**


  		




  
  100
  
    
	 * @param args


  		




  
  101
  
    
	 */


  		




  
  102
  
    
	public static void main(String[] args) {


  		




  
  103
  
    
		SapindaceaeActivator me = new SapindaceaeActivator();


  		




  
  104
  
    
		me.doImport();


  		




  
  105
  
    
	}


  		




  
  106
  
    
	


  		




  
  107
  
    
}


  		












  

    
      app-import/src/main/java/eu/etaxonomy/cdm/app/excelImport/taxa/NormalExplicitActivator.java
    
  





  11
  11
  
    

  		




  12
  12
  
    
import org.apache.log4j.Logger;


  		




  13
  13
  
    

  		




  
  14
  
    
import eu.etaxonomy.cdm.app.common.CdmDestinations;


  		




  14
  15
  
    
import eu.etaxonomy.cdm.app.util.TestDatabase;


  		




  15
  16
  
    
import eu.etaxonomy.cdm.database.ICdmDataSource;


  		




  16
  17
  
    
import eu.etaxonomy.cdm.io.common.CdmDefaultImport;


  		




  ......




  24
  25
  
    
 */


  		




  25
  26
  
    
public class NormalExplicitActivator {


  		




  26
  27
  
    

  		




  27
  
  
    
	private static final String dbName = "cdm_test_anahit";


  		




  
  28
  
    
	private static final String dbName = "cdm_test_jaxb";


  		




  28
  29
  
    
	private static String fileName = 


  		




  29
  
  
    
		new String("C:\\workspace\\cdmlib_2.1\\cdmlib-io\\src\\test\\resources\\eu\\etaxonomy\\cdm\\io\\excel\\taxa\\NormalExplicit.xls");


  		




  
  30
  
    
		new String("C:\\Cichori-test.xls");


  		




  30
  31
  
    
	


  		




  31
  
  
    
	private static final ICdmDataSource destinationDb = TestDatabase.CDM_DB(dbName);


  		




  
  32
  
    
	private static final ICdmDataSource destinationDb = CdmDestinations.cdm_test_jaxb();


  		




  32
  33
  
    
    private static final Logger logger = Logger.getLogger(NormalExplicitActivator.class);


  		




  33
  34
  
    
    


  		




  34
  35
  
    
    public static void main(String[] args) {


  		












  

    
      app-import/src/main/java/eu/etaxonomy/cdm/app/globis/GlobisActivator.java
    
  





  
  1
  
    
// $Id$


  		




  
  2
  
    
/**


  		




  
  3
  
    
* Copyright (C) 2007 EDIT


  		




  
  4
  
    
* European Distributed Institute of Taxonomy 


  		




  
  5
  
    
* http://www.e-taxonomy.eu


  		




  
  6
  
    
* 


  		




  
  7
  
    
* The contents of this file are subject to the Mozilla Public License Version 1.1


  		




  
  8
  
    
* See LICENSE.TXT at the top of this package for the full license terms.


  		




  
  9
  
    
*/


  		




  
  10
  
    

  		




  
  11
  
    
package eu.etaxonomy.cdm.app.globis;


  		




  
  12
  
    

  		




  
  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.common.CdmDestinations;


  		




  
  19
  
    
import eu.etaxonomy.cdm.app.common.CdmImportSources;


  		




  
  20
  
    
import eu.etaxonomy.cdm.database.DbSchemaValidation;


  		




  
  21
  
    
import eu.etaxonomy.cdm.database.ICdmDataSource;


  		




  
  22
  
    
import eu.etaxonomy.cdm.io.common.CdmDefaultImport;


  		




  
  23
  
    
import eu.etaxonomy.cdm.io.common.Source;


  		




  
  24
  
    
import eu.etaxonomy.cdm.io.common.IImportConfigurator.CHECK;


  		




  
  25
  
    
import eu.etaxonomy.cdm.io.common.IImportConfigurator.DO_REFERENCES;


  		




  
  26
  
    
import eu.etaxonomy.cdm.io.globis.GlobisImportConfigurator;


  		




  
  27
  
    
import eu.etaxonomy.cdm.model.common.ISourceable;


  		




  
  28
  
    
import eu.etaxonomy.cdm.model.name.NomenclaturalCode;


  		




  
  29
  
    
import eu.etaxonomy.cdm.model.name.ZoologicalName;


  		




  
  30
  
    

  		




  
  31
  
    
/**


  		




  
  32
  
    
 * @author a.mueller


  		




  
  33
  
    
 * @created 14.04.2010


  		




  
  34
  
    
 * @version 1.0


  		




  
  35
  
    
 */


  		




  
  36
  
    
public class GlobisActivator {


  		




  
  37
  
    
	private static final Logger logger = Logger.getLogger(GlobisActivator.class);


  		




  
  38
  
    

  		




  
  39
  
    
	//database validation status (create, update, validate ...)


  		




  
  40
  
    
	static DbSchemaValidation hbm2dll = DbSchemaValidation.CREATE;


  		




  
  41
  
    
	static final Source globisSource = CdmImportSources.GLOBIS();


  		




  
  42
  
    
	static final ICdmDataSource cdmDestination = CdmDestinations.localH2();


  		




  
  43
  
    
	static final UUID treeUuid = UUID.fromString("8bd27d84-fd4f-4bfa-bde0-3e6b7311b334");


  		




  
  44
  
    
	static final UUID featureTreeUuid = UUID.fromString("33cbf7a8-0c47-4d47-bd11-b7d77a38d0f6");


  		




  
  45
  
    
	//static final Object[] featureKeyList = new Integer[]{1,4,5,10,11,12,13,14, 249, 250, 251, 252, 253}; 


  		




  
  46
  
    
	


  		




  
  47
  
    
	//check - import


  		




  
  48
  
    
	static final CHECK check = CHECK.IMPORT_WITHOUT_CHECK;


  		




  
  49
  
    

  		




  
  50
  
    
	static final int partitionSize = 2000;


  		




  
  51
  
    

  		




  
  52
  
    

  		




  
  53
  
    
	//NomeclaturalCode


  		




  
  54
  
    
	static final NomenclaturalCode nomenclaturalCode = NomenclaturalCode.ICZN;


  		




  
  55
  
    

  		




  
  56
  
    
	//ignore null


  		




  
  57
  
    
	static final boolean ignoreNull = true;


  		




  
  58
  
    
	


  		




  
  59
  
    
// ***************** ALL ************************************************//


  		




  
  60
  
    
	


  		




  
  61
  
    
	//references


  		




  
  62
  
    
	static final DO_REFERENCES doReferences =  DO_REFERENCES.ALL;


  		




  
  63
  
    
	


  		




  
  64
  
    
	//taxa


  		




  
  65
  
    
	static final boolean doTaxa = true;


  		




  
  66
  
    
	static final boolean doRelTaxa = true;


  		




  
  67
  
    
	static final boolean doLinks = true;


  		




  
  68
  
    
	static final boolean doOccurences = true;


  		




  
  69
  
    
	static final boolean doImages = true;


  		




  
  70
  
    
	


  		




  
  71
  
    
	


  		




  
  72
  
    
//******************** NONE ***************************************//


  		




  
  73
  
    
	


  		




  
  74
  
    

  		




  
  75
  
    
//	//references


  		




  
  76
  
    
//	static final DO_REFERENCES doReferences =  DO_REFERENCES.NONE;


  		




  
  77
  
    
//	


  		




  
  78
  
    
//	//taxa


  		




  
  79
  
    
//	static final boolean doTaxa = false;


  		




  
  80
  
    
//	static final boolean doRelTaxa = false;


  		




  
  81
  
    
//	static final boolean doLinks = false;


  		




  
  82
  
    
//	static final boolean doOccurences = false;


  		




  
  83
  
    
//	


  		




  
  84
  
    
	


  		




  
  85
  
    
	


  		




  
  86
  
    
	/**


  		




  
  87
  
    
	 * @param args


  		




  
  88
  
    
	 */


  		




  
  89
  
    
	public static void main(String[] args) {


  		




  
  90
  
    
		System.out.println("Start import from ("+ globisSource.getDatabase() + ") ...");


  		




  
  91
  
    
		


  		




  
  92
  
    
		//make ERMS Source


  		




  
  93
  
    
		Source source = globisSource;


  		




  
  94
  
    
		ICdmDataSource destination = CdmDestinations.chooseDestination(args) != null ? CdmDestinations.chooseDestination(args) : cdmDestination;


  		




  
  95
  
    
		


  		




  
  96
  
    
		GlobisImportConfigurator config = GlobisImportConfigurator.NewInstance(source,  destination);


  		




  
  97
  
    
		


  		




  
  98
  
    
		config.setTaxonomicTreeUuid(treeUuid);


  		




  
  99
  
    
		config.setNomenclaturalCode(nomenclaturalCode);


  		




  
  100
  
    

  		




  
  101
  
    
		config.setIgnoreNull(ignoreNull);


  		




  
  102
  
    
		config.setDoReferences(doReferences);


  		




  
  103
  
    
		


  		




  
  104
  
    
		config.setDoTaxa(doTaxa);


  		




  
  105
  
    
		config.setDoRelTaxa(doRelTaxa);


  		




  
  106
  
    
		config.setDoLinks(doLinks);


  		




  
  107
  
    
		config.setDoOccurrence(doOccurences);


  		




  
  108
  
    
		config.setDbSchemaValidation(hbm2dll);


  		




  
  109
  
    

  		




  
  110
  
    
		config.setCheck(check);


  		




  
  111
  
    
		config.setRecordsPerTransaction(partitionSize);


  		




  
  112
  
    

  		




  
  113
  
    
		// invoke import


  		




  
  114
  
    
		CdmDefaultImport<GlobisImportConfigurator> globisImport = new CdmDefaultImport<GlobisImportConfigurator>();


  		




  
  115
  
    
		globisImport.invoke(config);


  		




  
  116
  
    
		


  		




  
  117
  
    
		if (config.getCheck().equals(CHECK.CHECK_AND_IMPORT)  || config.getCheck().equals(CHECK.IMPORT_WITHOUT_CHECK)    ){


  		




  
  118
  
    
			CdmApplicationController app = globisImport.getCdmAppController();


  		




  
  119
  
    
			ISourceable obj = app.getCommonService().getSourcedObjectByIdInSource(ZoologicalName.class, "1000027", null);


  		




  
  120
  
    
			logger.info(obj);


  		




  
  121
  
    
			


  		




  
  122
  
    
//			//make feature tree


  		




  
  123
  
    
//			FeatureTree tree = TreeCreator.flatTree(featureTreeUuid, ermsImportConfigurator.getFeatureMap(), featureKeyList);


  		




  
  124
  
    
//			app = ermsImport.getCdmAppController();


  		




  
  125
  
    
//			app.getFeatureTreeService().saveOrUpdate(tree);


  		




  
  126
  
    
		}


  		




  
  127
  
    
		System.out.println("End import from ("+ source.getDatabase() + ")...");


  		




  
  128
  
    
	}


  		




  
  129
  
    

  		




  
  130
  
    

  		




  
  131
  
    
}


  		












  

    
      app-import/src/main/java/eu/etaxonomy/cdm/app/images/ImageImportConfigurator.java
    
  





  29
  29
  
    
public class ImageImportConfigurator extends ImportConfiguratorBase implements IImportConfigurator {


  		




  30
  30
  
    
	private static final Logger logger = Logger.getLogger(ImageImportConfigurator.class);


  		




  31
  31
  
    

  		




  
  32
  
    

  		




  32
  33
  
    
	public static ImageImportConfigurator NewInstance(File source, ICdmDataSource destination, String mediaUrlString, Class<? extends AbstractImageImporter> importerClass){


  		




  33
  34
  
    
		return new ImageImportConfigurator(source, destination, mediaUrlString, importerClass);		


  		




  34
  35
  
    
	}


  		




  ......




  43
  44
  
    
	 * @param destination


  		




  44
  45
  
    
	 * @param importerClass


  		




  45
  46
  
    
	 * @return


  		




  46
  
  
    
	 * @deprecated use {@link #NewInstance(File, ICdmDataSource, String, Class)} instead


  		




  47
  47
  
    
	 */


  		




  48
  
  
    
	@Deprecated 


  		




  
  48
  
    
	 


  		




  49
  49
  
    
	public static ImageImportConfigurator NewInstance(File source, ICdmDataSource destination, Class<? extends AbstractImageImporter> importerClass){


  		




  50
  50
  
    
		return new ImageImportConfigurator(source, destination, null, importerClass);		


  		




  51
  51
  
    
	}


  		




  ......




  73
  73
  
    
			logger.warn("getSource Reference not yet fully implemented");


  		




  74
  74
  
    
			ReferenceFactory refFactory = ReferenceFactory.newInstance();


  		




  75
  75
  
    
			sourceReference = refFactory.newDatabase();


  		




  76
  
  
    
			sourceReference.setTitleCache("XXX");


  		




  
  76
  
    
			sourceReference.setTitleCache("XXX", true);


  		




  77
  77
  
    
		}


  		




  78
  78
  
    
		return sourceReference;


  		




  79
  79
  
    
	}


  		












  

    
      app-import/src/main/java/eu/etaxonomy/cdm/app/pesi/ErmsActivator.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.pesi;


  		




  
  11
  
    

  		




  
  12
  
    
import java.util.UUID;


  		




  
  13
  
    

  		




  
  14
  
    
import org.apache.log4j.Logger;


  		




  
  15
  
    

  		




  
  16
  
    
import eu.etaxonomy.cdm.api.application.CdmApplicationController;


  		




  
  17
  
    
import eu.etaxonomy.cdm.app.berlinModelImport.BerlinModelSources;


  		




  
  18
  
    
import eu.etaxonomy.cdm.app.common.CdmDestinations;


  		




  
  19
  
    
import eu.etaxonomy.cdm.database.DbSchemaValidation;


  		




  
  20
  
    
import eu.etaxonomy.cdm.database.ICdmDataSource;


  		




  
  21
  
    
import eu.etaxonomy.cdm.io.berlinModel.in.BerlinModelImportConfigurator;


  		




  
  22
  
    
import eu.etaxonomy.cdm.io.common.CdmDefaultImport;


  		




  
  23
  
    
import eu.etaxonomy.cdm.io.common.Source;


  		




  
  24
  
    
import eu.etaxonomy.cdm.io.common.IImportConfigurator.CHECK;


  		




  
  25
  
    
import eu.etaxonomy.cdm.io.common.IImportConfigurator.DO_REFERENCES;


  		




  
  26
  
    
import eu.etaxonomy.cdm.model.common.ISourceable;


  		




  
  27
  
    
import eu.etaxonomy.cdm.model.name.NomenclaturalCode;


  		




  
  28
  
    
import eu.etaxonomy.cdm.model.name.ZoologicalName;


  		




  
  29
  
    

  		




  
  30
  
    

  		




  
  31
  
    
/**


  		




  
  32
  
    
 * TODO add the following to a wiki page:


  		




  
  33
  
    
 * 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 base under another operation systen 


  		




  
  34
  
    
 * you must set the mysql system variable lower_case_table_names = 0 in order to create data base with table compatible names.


  		




  
  35
  
    
 * 


  		




  
  36
  
    
 * 


  		




  
  37
  
    
 * @author a.mueller


  		




  
  38
  
    
 *


  		




  
  39
  
    
 */


  		




  
  40
  
    
public class ErmsActivator {


  		




  
  41
  
    
	private static final Logger logger = Logger.getLogger(ErmsActivator.class);


  		




  
  42
  
    

  		




  
  43
  
    
	//database validation status (create, update, validate ...)


  		




  
  44
  
    
	static DbSchemaValidation hbm2dll = DbSchemaValidation.CREATE;


  		




  
  45
  
    
	static final Source berlinModelSource = FaunaEuropaeaSources.PESI_ERMS();


  		




  
  46
  
    
	static final ICdmDataSource cdmDestination = CdmDestinations.cdm_pesi_erms();


  		




  
  47
  
    
	static final UUID treeUuid = UUID.fromString("8bd27d84-fd4f-4bfa-bde0-3e6b7311b334");


  		




  
  48
  
    
	static final int sourceSecId = 500000;


  		




  
  49
  
    
	static final UUID featureTreeUuid = UUID.fromString("33cbf7a8-0c47-4d47-bd11-b7d77a38d0f6");


  		




  
  50
  
    
	static final Object[] featureKeyList = new Integer[]{1,4,5,10,11,12,13,14, 249, 250, 251, 252, 253}; 


  		




  
  51
  
    
	


  		




  
  52
  
    
	//check - import


  		




  
  53
  
    
	static final CHECK check = CHECK.CHECK_AND_IMPORT;


  		




  
  54
  
    

  		




  
  55
  
    

  		




  
  56
  
    
	//NomeclaturalCode


  		




  
  57
  
    
	static final NomenclaturalCode nomenclaturalCode = NomenclaturalCode.ICZN;


  		




  
  58
  
    

  		




  
  59
  
    
	//ignore null


  		




  
  60
  
    
	static final boolean ignoreNull = true;


  		




  
  61
  
    
	


  		




  
  62
  
    
// ***************** ALL ************************************************//


  		




  
  63
  
    
	


  		




  
  64
  
    
	//authors


  		




  
  65
  
    
	static final boolean doAuthors = true;


  		




  
  66
  
    
	//references


  		




  
  67
  
    
	static final DO_REFERENCES doReferences =  DO_REFERENCES.CONCEPT_REFERENCES;


  		




  
  68
  
    
	//names


  		




  
  69
  
    
	static final boolean doTaxonNames = false;


  		




  
  70
  
    
	static final boolean doRelNames = true;


  		




  
  71
  
    
	static final boolean doNameStatus = true;


  		




  
  72
  
    
	static final boolean doTypes = true;


  		




  
  73
  
    
	static final boolean doNameFacts = true;


  		




  
  74
  
    
	


  		




  
  75
  
    
	//taxa


  		




  
  76
  
    
	static final boolean doTaxa = true;


  		




  
  77
  
    
	static final boolean doRelTaxa = true;


  		




  
  78
  
    
	static final boolean doFacts = true;


  		




  
  79
  
    
	static final boolean doOccurences = false;


  		




  
  80
  
    
	


  		




  
  81
  
    
	


  		




  
  82
  
    
//******************** NONE ***************************************//


  		




  
  83
  
    
	


  		




  
  84
  
    
//	//authors


  		




  
  85
  
    
//	static final boolean doAuthors = true;


  		




  
  86
  
    
//	//references


  		




  
  87
  
    
//	static final DO_REFERENCES doReferences =  DO_REFERENCES.NONE;


  		




  
  88
  
    
//	//names


  		




  
  89
  
    
//	static final boolean doTaxonNames = false;


  		




  
  90
  
    
//	static final boolean doRelNames = false;


  		




  
  91
  
    
//	static final boolean doNameStatus = false;


  		




  
  92
  
    
//	static final boolean doTypes = false;


  		




  
  93
  
    
//	static final boolean doNameFacts = false;


  		




  
  94
  
    
//	


  		




  
  95
  
    
//	//taxa


  		




  
  96
  
    
//	static final boolean doTaxa = true;


  		




  
  97
  
    
//	static final boolean doRelTaxa = false;


  		




  
  98
  
    
//	static final boolean doFacts = false;


  		




  
  99
  
    
//	static final boolean doOccurences = false;


  		




  
  100
  
    
//	


  		




  
  101
  
    
	


  		




  
  102
  
    
	


  		




  
  103
  
    
	/**


  		




  
  104
  
    
	 * @param args


  		




  
  105
  
    
	 */


  		




  
  106
  
    
	public static void main(String[] args) {


  		




  
  107
  
    
		System.out.println("Start import from BerlinModel("+ berlinModelSource.getDatabase() + ") ...");


  		




  
  108
  
    
		


  		




  
  109
  
    
		//make BerlinModel Source


  		




  
  110
  
    
		Source source = berlinModelSource;


  		




  
  111
  
    
		ICdmDataSource destination = CdmDestinations.chooseDestination(args) != null ? CdmDestinations.chooseDestination(args) : cdmDestination;


  		




  
  112
  
    
		


  		




  
  113
  
    
		BerlinModelImportConfigurator bmImportConfigurator = BerlinModelImportConfigurator.NewInstance(source,  destination);


  		




  
  114
  
    
		


  		




  
  115
  
    
		bmImportConfigurator.setTaxonomicTreeUuid(treeUuid);


  		




  
  116
  
    
		bmImportConfigurator.setSourceSecId(sourceSecId);


  		




  
  117
  
    
		bmImportConfigurator.setNomenclaturalCode(nomenclaturalCode);


  		




  
  118
  
    

  		




  
  119
  
    
		bmImportConfigurator.setIgnoreNull(ignoreNull);


  		




  
  120
  
    
		bmImportConfigurator.setDoAuthors(doAuthors);


  		




  
  121
  
    
		bmImportConfigurator.setDoReferences(doReferences);


  		




  
  122
  
    
		bmImportConfigurator.setDoTaxonNames(doTaxonNames);


  		




  
  123
  
    
		bmImportConfigurator.setDoRelNames(doRelNames);


  		




  
  124
  
    
		bmImportConfigurator.setDoNameStatus(doNameStatus);


  		




  
  125
  
    
		bmImportConfigurator.setDoTypes(doTypes);


  		




  
  126
  
    
		bmImportConfigurator.setDoNameFacts(doNameFacts);


  		




  
  127
  
    
		


  		




  
  128
  
    
		bmImportConfigurator.setDoTaxa(doTaxa);


  		




  
  129
  
    
		bmImportConfigurator.setDoRelTaxa(doRelTaxa);


  		




  
  130
  
    
		bmImportConfigurator.setDoFacts(doFacts);


  		




  
  131
  
    
		bmImportConfigurator.setDoOccurrence(doOccurences);


  		




  
  132
  
    
		bmImportConfigurator.setDbSchemaValidation(hbm2dll);


  		




  
  133
  
    

  		




  
  134
  
    
		bmImportConfigurator.setCheck(check);


  		




  
  135
  
    
		


  		




  
  136
  
    
		// invoke import


  		




  
  137
  
    
		CdmDefaultImport<BerlinModelImportConfigurator> bmImport = new CdmDefaultImport<BerlinModelImportConfigurator>();


  		




  
  138
  
    
		bmImport.invoke(bmImportConfigurator);


  		




  
  139
  
    
		


  		




  
  140
  
    
		if (bmImportConfigurator.getCheck().equals(CHECK.CHECK_AND_IMPORT)  || bmImportConfigurator.getCheck().equals(CHECK.IMPORT_WITHOUT_CHECK)    ){


  		




  
  141
  
    
			CdmApplicationController app = bmImport.getCdmAppController();


  		




  
  142
  
    
			ISourceable obj = app.getCommonService().getSourcedObjectByIdInSource(ZoologicalName.class, "1000027", null);


  		




  
  143
  
    
			logger.info(obj);


  		




  
  144
  
    
			


  		




  
  145
  
    
//			//make feature tree


  		




  
  146
  
    
//			FeatureTree tree = TreeCreator.flatTree(featureTreeUuid, bmImportConfigurator.getFeatureMap(), featureKeyList);


  		




  
  147
  
    
//			app = bmImport.getCdmAppController();


  		




  
  148
  
    
//			app.getFeatureTreeService().saveOrUpdate(tree);


  		




  
  149
  
    
		}


  		




  
  150
  
    
		System.out.println("End import from BerlinModel ("+ source.getDatabase() + ")...");


  		




  
  151
  
    
	}


  		




  
  152
  
    

  		




  
  153
  
    
}


  		












  

    
      app-import/src/main/java/eu/etaxonomy/cdm/app/pesi/EuroMedActivator.java
    
  





  97
  97
  
    
	static final boolean doRelTaxa = true;


  		




  98
  98
  
    
	static final boolean doFacts = true;


  		




  99
  99
  
    
	static final boolean doOccurences = true;


  		




  
  100
  
    
	static final boolean doCommonNames = true;


  		




  100
  101
  
    

  		




  101
  102
  
    
	//etc.


  		




  102
  103
  
    
	static final boolean doMarker = true;


  		




  ......




  157
  158
  
    
		bmImportConfigurator.setDoRelTaxa(doRelTaxa);


  		




  158
  159
  
    
		bmImportConfigurator.setDoFacts(doFacts);


  		




  159
  160
  
    
		bmImportConfigurator.setDoOccurrence(doOccurences);


  		




  
  161
  
    
		bmImportConfigurator.setDoCommonNames(doCommonNames);


  		




  160
  162
  
    
		


  		




  161
  163
  
    
		bmImportConfigurator.setDoMarker(doMarker);


  		




  162
  164
  
    
		bmImportConfigurator.setDoUser(doUser);


  		












  

    
      app-import/src/main/java/eu/etaxonomy/cdm/app/pesi/FaunaEuropaeaActivator.java
    
  





  36
  36
  
    
	private static final Logger logger = Logger.getLogger(FaunaEuropaeaActivator.class);


  		




  37
  37
  
    

  		




  38
  38
  
    
	static final Source faunaEuropaeaSource = FaunaEuropaeaSources.faunEu();


  		




  39
  
  
    
	static final ICdmDataSource cdmDestination = CdmDestinations.localH2();


  		




  
  39
  
    
	static final ICdmDataSource cdmDestination = CdmDestinations.cdm_test_jaxb();


  		




  40
  40
  
    
	


  		




  41
  41
  
    
	static final int limitSave = 2000;


  		




  42
  42
  
    

  		












  

    
      app-import/src/main/java/eu/etaxonomy/cdm/app/pesi/FaunaEuropaeaSources.java
    
  





  25
  25
  
    
	


  		




  26
  26
  
    
	public static Source faunEu(){


  		




  27
  27
  
    
		//	Fauna Europaea


  		




  28
  
  
    
		//String dbms = Source.SQL_SERVER_2000;


  		




  29
  
  
    
		//String dbms = Source.SQL_SERVER_2005;


  		




  
  28
  
    
		


  		




  30
  29
  
    
		String dbms = Source.SQL_SERVER_2008;


  		




  31
  
  
    
//		String strServer = "160.45.63.37";


  		




  32
  
  
    
//		String strServer = "BGBM14";               


  		




  
  30
  
    
           


  		




  33
  31
  
    
		String strServer = "BGBM42";               // "192.168.1.36";


  		




  
  32
  
    
            


  		




  34
  33
  
    
		String strDB = "FaunEu";


  		




  35
  34
  
    
		int port = 1433;


  		




  36
  35
  
    
		String userName = "WebUser";


  		












  

    
      app-import/src/main/java/eu/etaxonomy/cdm/app/pesi/PesiDestinations.java
    
  





  24
  24
  
    
	@SuppressWarnings("unused")


  		




  25
  25
  
    
	private static final Logger logger = Logger.getLogger(PesiDestinations.class);


  		




  26
  26
  
    
	


  		




  27
  
  
    
	public static Source pesi_test_local(){


  		




  
  27
  
    
	public static Source pesi_test_local_PESI_V10(){


  		




  28
  28
  
    
		//	CDM - PESI


  		




  29
  29
  
    
		String dbms = Source.SQL_SERVER_2008;


  		




  30
  30
  
    
		String strServer = "C206\\MSSQLSERVER2";


  		




  ......




  35
  35
  
    
		return makeSource(dbms, strServer, strDB, port, userName, pwd);


  		




  36
  36
  
    
	}


  		




  37
  37
  
    
	


  		




  
  38
  
    
	public static Source pesi_test_local_CDM_DWH_FaEu(){


  		




  
  39
  
    
		//	CDM - PESI


  		




  
  40
  
    
		String dbms = Source.SQL_SERVER_2008;


  		




  
  41
  
    
		String strServer = "C206\\MSSQLSERVER2";


  		




  
  42
  
    
		String strDB = "CDM_DWH_FaEu";


  		




  
  43
  
    
		int port = 1433;


  		




  
  44
  
    
		String userName = "sa";


  		




  
  45
  
    
		String pwd = "bewell";


  		




  
  46
  
    
		return makeSource(dbms, strServer, strDB, port, userName, pwd);


  		




  
  47
  
    
	}


  		




  
  48
  
    
	


  		




  
  49
  
    
	public static Source pesi_test_bgbm42_CDM_DWH_FaEu(){


  		




  
  50
  
    
		//	CDM - PESI


  		




  
  51
  
    
		String dbms = Source.SQL_SERVER_2008;


  		




  
  52
  
    
		String strServer = "BGBM42";


  		




  
  53
  
    
		String strDB = "CDM_DWH_FaEu";


  		




  
  54
  
    
		int port = 1433;


  		




  
  55
  
    
		String userName = "WebUser";


  		




  
  56
  
    
		String pwd = "";


  		




  
  57
  
    
		return makeSource(dbms, strServer, strDB, port, userName, pwd);


  		




  
  58
  
    
	}


  		




  
  59
  
    
	


  		




  38
  60
  
    
	/**


  		




  39
  61
  
    
	 * Initializes the source.


  		




  40
  62
  
    
	 * @param dbms


  		












  

    
      app-import/src/main/java/eu/etaxonomy/cdm/app/pesi/PesiExportActivator.java
    
  





  12
  12
  
    
import java.util.UUID;


  		




  13
  13
  
    

  		




  14
  14
  
    
import org.apache.log4j.Logger;


  		




  
  15
  
    
import org.springframework.transaction.TransactionStatus;


  		




  15
  16
  
    

  		




  16
  17
  
    
import eu.etaxonomy.cdm.app.common.CdmDestinations;


  		




  17
  18
  
    
import eu.etaxonomy.cdm.database.ICdmDataSource;


  		








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