updated to support new spd-model at version 3.0.0-SNAPSHOT
git-svn-id: http://svn.research-infrastructures.eu/public/d4science/gcube/trunk/portlets/user/speciesdiscovery@86191 82a268e6-3cf1-43bd-a215-b396298e98cf
This commit is contained in:
parent
c51f6ef716
commit
b40c5c4b3a
9
pom.xml
9
pom.xml
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@ -97,15 +97,6 @@
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<scope>provided</scope>
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<scope>provided</scope>
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</dependency>
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</dependency>
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<dependency>
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<groupId>org.gcube.data.spd</groupId>
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<artifactId>spd-model</artifactId>
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<version>1.0.0-SNAPSHOT</version>
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<!-- UNCOMMENT THIS FOR RELEASE -->
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<!-- <version>[1.0.0-SNAPSHOT, 2.0.0-SNAPSHOT)</version> -->
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<scope>provided</scope>
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</dependency>
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<dependency>
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<dependency>
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<groupId>org.gcube.resources.discovery</groupId>
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<groupId>org.gcube.resources.discovery</groupId>
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<artifactId>discovery-client</artifactId>
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<artifactId>discovery-client</artifactId>
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@ -29,7 +29,7 @@ public class TablesForResultRow {
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String matchingCredits= "";
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String matchingCredits= "";
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int occurencesCount = 0;
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int occurencesCount = 0;
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String author = "";
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String scientificNameAuthorship = "";
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String lsid = "";
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String lsid = "";
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String credits = "";
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String credits = "";
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@ -62,7 +62,7 @@ public class TablesForResultRow {
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}
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}
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if(row.getAuthor()!=null) author = row.getAuthor();
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if(row.getScientificNameAuthorship()!=null) scientificNameAuthorship = row.getScientificNameAuthorship();
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if(row.getLsid()!=null) lsid = row.getLsid();
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if(row.getLsid()!=null) lsid = row.getLsid();
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@ -139,8 +139,8 @@ public class TablesForResultRow {
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" <td>"+lsid+"</td>" +
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" <td>"+lsid+"</td>" +
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"</tr>" +
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"</tr>" +
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"<tr>" +
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"<tr>" +
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" <td class=\"title\">"+SpeciesGridFields.AUTHOR.getName()+"</td>" +
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" <td class=\"title\">"+SpeciesGridFields.SCIENTIFICNAMEAUTHORSHIP.getName()+"</td>" +
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" <td>"+author+"</td>" +
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" <td>"+scientificNameAuthorship+"</td>" +
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"</tr>" +
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"</tr>" +
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"<tr>" +
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"<tr>" +
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" <td class=\"title\">"+SpeciesGridFields.CREDITS.getName()+"</td>" +
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" <td class=\"title\">"+SpeciesGridFields.CREDITS.getName()+"</td>" +
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@ -117,7 +117,7 @@ public class SpeciesGrid extends ContentPanel implements SpeciesViewInterface {
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ColumnConfig matchingName = Util.createColumnConfig(SpeciesGridFields.MATCHING_NAME, 180);
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ColumnConfig matchingName = Util.createColumnConfig(SpeciesGridFields.MATCHING_NAME, 180);
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columns.add(matchingName);
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columns.add(matchingName);
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ColumnConfig author = Util.createColumnConfig(TaxonomyGridField.AUTHOR, 150);
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ColumnConfig author = Util.createColumnConfig(TaxonomyGridField.SCIENTIFICNAMEAUTHORSHIP, 150);
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columns.add(author);
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columns.add(author);
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ColumnConfig accordingTo = Util.createColumnConfig(SpeciesGridFields.MATCHING_AUTHOR, 200);
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ColumnConfig accordingTo = Util.createColumnConfig(SpeciesGridFields.MATCHING_AUTHOR, 200);
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@ -96,7 +96,7 @@ public class TaxonomyGrid extends ContentPanel implements SpeciesViewInterface {
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ColumnConfig matchingName = Util.createColumnConfig(TaxonomyGridField.SCIENTIFIC_NAME, 180);
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ColumnConfig matchingName = Util.createColumnConfig(TaxonomyGridField.SCIENTIFIC_NAME, 180);
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columns.add(matchingName);
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columns.add(matchingName);
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ColumnConfig author = Util.createColumnConfig(TaxonomyGridField.AUTHOR, 150);
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ColumnConfig author = Util.createColumnConfig(TaxonomyGridField.SCIENTIFICNAMEAUTHORSHIP, 150);
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columns.add(author);
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columns.add(author);
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ColumnConfig dataProvider = Util.createColumnConfig(TaxonomyGridField.DATASOURCE, 250);
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ColumnConfig dataProvider = Util.createColumnConfig(TaxonomyGridField.DATASOURCE, 250);
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@ -18,12 +18,13 @@ public enum OccurencesGridFields implements GridField {
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DATAPROVIDER("dataProvider", "Data Provider"),
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DATAPROVIDER("dataProvider", "Data Provider"),
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DATASET("dataSet","Dataset"),
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DATASET("dataSet","Dataset"),
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AUTHOR("author", "Author"),
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SCIENTIFICNAMEAUTHORSHIP("scientificNameAuthorship", "S.N. Authorship"),
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CREDITS("credits", "Credits"),
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CREDITS("credits", "Credits"),
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// LSID("lsid", "LSID"),
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// LSID("lsid", "LSID"),
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PROPERTIES("properties", "Properties"),
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PROPERTIES("properties", "Properties"),
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RECORDED_BY("recordedBy", "RecordedBy"),
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RECORDED_BY("recordedBy", "Recorded By"),
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IDENTIFIED_BY("identifiedBy","Identified By"),
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EVENT_DATE("eventDate", "EventDate"),
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EVENT_DATE("eventDate", "EventDate"),
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MODIFIED("modified", "Modified"),
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MODIFIED("modified", "Modified"),
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SCIENTIFIC_NAME("scientificName", "ScientificName"),
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SCIENTIFIC_NAME("scientificName", "ScientificName"),
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@ -25,7 +25,7 @@ public enum SpeciesGridFields implements GridField {
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PRODUCT_LAYERS("productLayers", "Layers"),
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PRODUCT_LAYERS("productLayers", "Layers"),
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PRODUCT_OCCURRENCES("productOccurrences", "Occurrences"),
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PRODUCT_OCCURRENCES("productOccurrences", "Occurrences"),
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AUTHOR("author", "Author"),
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SCIENTIFICNAMEAUTHORSHIP("scientificNameAuthorship", "S.N. Authorship"),
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CREDITS("credits", "Credits"),
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CREDITS("credits", "Credits"),
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LSID("lsid", "LSID"),
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LSID("lsid", "LSID"),
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PROPERTIES("properties", "Properties"),
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PROPERTIES("properties", "Properties"),
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@ -17,7 +17,7 @@ public enum TaxonomyGridField implements GridField {
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// NAME("name", "Name"),
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// NAME("name", "Name"),
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MATCHING_AUTHOR("accordingTo", "According to"),
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MATCHING_AUTHOR("accordingTo", "According to"),
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AUTHOR("author", "Author"),
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SCIENTIFICNAMEAUTHORSHIP("scientificNameAuthorship", "S.N. Authorship"),
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CREDITS("credits", "Credits"),
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CREDITS("credits", "Credits"),
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LSID("lsid", "LSID"),
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LSID("lsid", "LSID"),
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PROPERTIES("properties", "Properties"),
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PROPERTIES("properties", "Properties"),
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@ -60,13 +60,13 @@ public class OccurrencesDataSource implements DataSource{
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{
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{
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BaseModelData data = new BaseModelData();
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BaseModelData data = new BaseModelData();
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String author = "";
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String authorship = "";
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String lsid = "";
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String lsid = "";
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String credits = "";
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String credits = "";
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String propertiesHtml = "";
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String propertiesHtml = "";
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if(occurrence.getAuthor()!=null) author = occurrence.getAuthor();
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if(occurrence.getScientificNameAuthorship()!=null) authorship = occurrence.getScientificNameAuthorship();
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if(occurrence.getLsid()!=null) lsid = occurrence.getLsid();
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if(occurrence.getLsid()!=null) lsid = occurrence.getLsid();
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@ -101,12 +101,13 @@ public class OccurrencesDataSource implements DataSource{
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data.set(OccurencesGridFields.DATASOURCE.getId(), occurrence.getDataSource());
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data.set(OccurencesGridFields.DATASOURCE.getId(), occurrence.getDataSource());
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data.set(OccurencesGridFields.AUTHOR.getId(),author);
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data.set(OccurencesGridFields.SCIENTIFICNAMEAUTHORSHIP.getId(),authorship);
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// data.set(OccurencesGridFields.LSID.getId(), lsid);
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// data.set(OccurencesGridFields.LSID.getId(), lsid);
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data.set(OccurencesGridFields.CREDITS.getId(), credits);
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data.set(OccurencesGridFields.CREDITS.getId(), credits);
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data.set(OccurencesGridFields.PROPERTIES.getId(), propertiesHtml);
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data.set(OccurencesGridFields.PROPERTIES.getId(), propertiesHtml);
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data.set(OccurencesGridFields.RECORDED_BY.getId(), occurrence.getRecordedBy());
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data.set(OccurencesGridFields.RECORDED_BY.getId(), occurrence.getRecordedBy());
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data.set(OccurencesGridFields.IDENTIFIED_BY.getId(), occurrence.getIdentifiedBy());
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data.set(OccurencesGridFields.EVENT_DATE.getId(), occurrence.getEventDate());
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data.set(OccurencesGridFields.EVENT_DATE.getId(), occurrence.getEventDate());
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data.set(OccurencesGridFields.MODIFIED.getId(), occurrence.getModified());
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data.set(OccurencesGridFields.MODIFIED.getId(), occurrence.getModified());
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data.set(OccurencesGridFields.SCIENTIFIC_NAME.getId(), occurrence.getScientificName());
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data.set(OccurencesGridFields.SCIENTIFIC_NAME.getId(), occurrence.getScientificName());
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@ -144,7 +144,7 @@ public class ResultRowDataSource implements DataSource {
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int mapCount= 0;
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int mapCount= 0;
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int layerCount = 0;
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int layerCount = 0;
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int occurencesCount = 0;
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int occurencesCount = 0;
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String author = "";
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String authorship = "";
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List<ItemParameter> listProperties = new ArrayList<ItemParameter>();
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List<ItemParameter> listProperties = new ArrayList<ItemParameter>();
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@ -174,7 +174,7 @@ public class ResultRowDataSource implements DataSource {
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if(row.getMapsCount()!=0) mapCount = row.getMapsCount();
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if(row.getMapsCount()!=0) mapCount = row.getMapsCount();
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if(row.getLayersCount()!=0) layerCount = row.getLayersCount();
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if(row.getLayersCount()!=0) layerCount = row.getLayersCount();
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if(row.getOccurencesCount()!=0) occurencesCount = row.getOccurencesCount();
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if(row.getOccurencesCount()!=0) occurencesCount = row.getOccurencesCount();
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if(row.getAuthor()!=null) author = row.getAuthor();
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if(row.getScientificNameAuthorship()!=null) authorship = row.getScientificNameAuthorship();
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if(row.getProperties()!=null) listProperties = row.getProperties();
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if(row.getProperties()!=null) listProperties = row.getProperties();
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@ -192,7 +192,7 @@ public class ResultRowDataSource implements DataSource {
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data.set(SpeciesGridFields.MATCHING_CREDITS.getId(),matchingCredits);
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data.set(SpeciesGridFields.MATCHING_CREDITS.getId(),matchingCredits);
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data.set(SpeciesGridFields.PROPERTIES.getId(),listProperties);
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data.set(SpeciesGridFields.PROPERTIES.getId(),listProperties);
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data.set(SpeciesGridFields.AUTHOR.getId(), author);
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data.set(SpeciesGridFields.SCIENTIFICNAMEAUTHORSHIP.getId(), authorship);
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List<CommonName> listCommonName = new ArrayList<CommonName>();
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List<CommonName> listCommonName = new ArrayList<CommonName>();
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@ -124,7 +124,7 @@ public class TaxonomyRowDataSource implements DataSource {
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// if(row.getAccordingTo()!=null) matchingAccordingTo = row.getAccordingTo();
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// if(row.getAccordingTo()!=null) matchingAccordingTo = row.getAccordingTo();
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if(row.getStatusRemarks()!=null) statusRemarks = row.getStatusRemarks();
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if(row.getStatusRemarks()!=null) statusRemarks = row.getStatusRemarks();
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if(row.getProperties()!=null) hashProperties = row.getProperties();
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if(row.getProperties()!=null) hashProperties = row.getProperties();
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if(row.getAuthor()!=null) author = row.getAuthor();
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if(row.getScientificNameAuthorship()!=null) author = row.getScientificNameAuthorship();
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if(row.getParents()!=null){
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if(row.getParents()!=null){
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classificationString = getClassification(row.getParents());
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classificationString = getClassification(row.getParents());
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@ -141,7 +141,7 @@ public class TaxonomyRowDataSource implements DataSource {
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data.set(TaxonomyGridField.STATUSREFNAME.getId(), statusRefName);
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data.set(TaxonomyGridField.STATUSREFNAME.getId(), statusRefName);
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data.set(TaxonomyGridField.STATUSREFID.getId(), statusRedId);
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data.set(TaxonomyGridField.STATUSREFID.getId(), statusRedId);
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data.set(TaxonomyGridField.DATEMODIFIED.getId(), dateModified);
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data.set(TaxonomyGridField.DATEMODIFIED.getId(), dateModified);
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data.set(TaxonomyGridField.AUTHOR.getId(), author);
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data.set(TaxonomyGridField.SCIENTIFICNAMEAUTHORSHIP.getId(), author);
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// data.set(TaxonomyGridField.MATCHING_ACCORDING_TO.getId(),matchingAccordingTo);
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// data.set(TaxonomyGridField.MATCHING_ACCORDING_TO.getId(),matchingAccordingTo);
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data.set(TaxonomyGridField.STATUS_REMARKS.getId(),statusRemarks);
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data.set(TaxonomyGridField.STATUS_REMARKS.getId(),statusRemarks);
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@ -207,7 +207,7 @@ public class ResultRowTable extends HttpServlet {
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String matchingCredits= "";
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String matchingCredits= "";
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int occurencesCount = 0;
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int occurencesCount = 0;
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String author = "";
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String scientificNameAuthorship = "";
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String lsid = "";
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String lsid = "";
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String credits = "";
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String credits = "";
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@ -240,7 +240,7 @@ public class ResultRowTable extends HttpServlet {
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}
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}
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if(row.getAuthor()!=null) author = row.getAuthor();
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if(row.getScientificNameAuthorship()!=null) scientificNameAuthorship = row.getScientificNameAuthorship();
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if(row.getLsid()!=null) lsid = row.getLsid();
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if(row.getLsid()!=null) lsid = row.getLsid();
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@ -317,8 +317,8 @@ public class ResultRowTable extends HttpServlet {
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" <td>"+lsid+"</td>" +
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" <td>"+lsid+"</td>" +
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"</tr>" +
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"</tr>" +
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"<tr>" +
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"<tr>" +
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" <td class=\"title\">"+SpeciesGridFields.AUTHOR.getName()+"</td>" +
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" <td class=\"title\">"+SpeciesGridFields.SCIENTIFICNAMEAUTHORSHIP.getName()+"</td>" +
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" <td>"+author+"</td>" +
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" <td>"+scientificNameAuthorship+"</td>" +
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"</tr>" +
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"</tr>" +
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"<tr>" +
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"<tr>" +
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" <td class=\"title\">"+SpeciesGridFields.CREDITS.getName()+"</td>" +
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" <td class=\"title\">"+SpeciesGridFields.CREDITS.getName()+"</td>" +
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@ -313,7 +313,7 @@ public class TaxonomyRowTable extends HttpServlet {
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String dateModified = "";
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String dateModified = "";
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String statusRemark = "";
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String statusRemark = "";
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String author = "";
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String scientificNameAuthorship = "";
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String lsid = "";
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String lsid = "";
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String credits = "";
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String credits = "";
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@ -329,7 +329,7 @@ public class TaxonomyRowTable extends HttpServlet {
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if(row.getStatusRemarks()!=null) statusRemark = row.getStatusRemarks();
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if(row.getStatusRemarks()!=null) statusRemark = row.getStatusRemarks();
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if(row.getAuthor()!=null) author = row.getAuthor();
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if(row.getScientificNameAuthorship()!=null) scientificNameAuthorship = row.getScientificNameAuthorship();
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if(row.getLsid()!=null) lsid = row.getLsid();
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if(row.getLsid()!=null) lsid = row.getLsid();
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@ -408,8 +408,8 @@ public class TaxonomyRowTable extends HttpServlet {
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" <td>"+lsid+"</td>" +
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" <td>"+lsid+"</td>" +
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"</tr>" +
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"</tr>" +
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"<tr>" +
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"<tr>" +
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" <td class=\"title\">"+TaxonomyGridField.AUTHOR.getName()+"</td>" +
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" <td class=\"title\">"+TaxonomyGridField.SCIENTIFICNAMEAUTHORSHIP.getName()+"</td>" +
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" <td>"+author+"</td>" +
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" <td>"+scientificNameAuthorship+"</td>" +
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"</tr>" +
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"</tr>" +
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"<tr>" +
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"<tr>" +
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" <td class=\"title\">"+TaxonomyGridField.CREDITS.getName()+"</td>" +
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" <td class=\"title\">"+TaxonomyGridField.CREDITS.getName()+"</td>" +
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@ -54,13 +54,12 @@ public class OccurrenceConverter implements Converter<OccurrencePoint, org.gcube
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}
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}
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//set author
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//set author
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if(input.getAuthor()!=null && !input.getAuthor().isEmpty()){
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if(input.getScientificNameAuthorship()!=null && !input.getScientificNameAuthorship().isEmpty()){
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occurrence.setAuthor(StringEscapeUtils.escapeSql(input.getAuthor()));
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occurrence.setScientificNameAuthorship(StringEscapeUtils.escapeSql(input.getScientificNameAuthorship()));
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}
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}
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else
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else
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occurrence.setAuthor(ConstantsSpeciesDiscovery.NOT_FOUND);
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occurrence.setScientificNameAuthorship(ConstantsSpeciesDiscovery.NOT_FOUND);
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//set credits
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//set credits
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if(input.getCredits()!=null && !input.getCredits().isEmpty()){
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if(input.getCredits()!=null && !input.getCredits().isEmpty()){
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@ -70,6 +69,13 @@ public class OccurrenceConverter implements Converter<OccurrencePoint, org.gcube
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occurrence.setCredits(ConstantsSpeciesDiscovery.NOT_FOUND);
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occurrence.setCredits(ConstantsSpeciesDiscovery.NOT_FOUND);
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//set credits
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if(input.getIdentifiedBy()!=null && !input.getIdentifiedBy().isEmpty()){
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occurrence.setIdentifiedBy(StringEscapeUtils.escapeSql(input.getIdentifiedBy()));
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}
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else
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occurrence.setIdentifiedBy(ConstantsSpeciesDiscovery.NOT_FOUND);
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if(input.getDataSet()!=null){
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if(input.getDataSet()!=null){
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occurrence.setDataSet(cleanValueEscapeSql(input.getDataSet().getName()));
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occurrence.setDataSet(cleanValueEscapeSql(input.getDataSet().getName()));
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@ -58,12 +58,12 @@ public class ResultItemConverter implements Converter<ResultItem, ResultRow> {
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}
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}
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//set author
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//set author
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if(input.getAuthor()!=null && !input.getAuthor().isEmpty()){
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if(input.getScientificNameAuthorship()!=null && !input.getScientificNameAuthorship().isEmpty()){
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// row.setAuthor(StringEscapeUtils.escapeSql(input.getAuthor()));
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// row.setAuthor(StringEscapeUtils.escapeSql(input.getAuthor()));
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row.setAuthor(input.getAuthor());
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row.setScientificNameAuthorship(input.getScientificNameAuthorship());
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}
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}
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else
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else
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row.setAuthor(ConstantsSpeciesDiscovery.NOT_FOUND);
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row.setScientificNameAuthorship(ConstantsSpeciesDiscovery.NOT_FOUND);
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//set credits
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//set credits
|
||||||
if(input.getCredits()!=null && !input.getCredits().isEmpty()){
|
if(input.getCredits()!=null && !input.getCredits().isEmpty()){
|
||||||
|
|
|
@ -155,11 +155,11 @@ public class TaxonomyItemConverter implements Converter<TaxonomyItem, TaxonomyRo
|
||||||
tax.setServiceId(input.getId());
|
tax.setServiceId(input.getId());
|
||||||
}
|
}
|
||||||
|
|
||||||
if(input.getAuthor()!=null && !input.getAuthor().isEmpty()){
|
if(input.getScientificNameAuthorship()!=null && !input.getScientificNameAuthorship().isEmpty()){
|
||||||
tax.setAuthor(input.getAuthor());
|
tax.setScientificNameAuthorship(input.getScientificNameAuthorship());
|
||||||
}
|
}
|
||||||
else
|
else
|
||||||
tax.setAuthor(ConstantsSpeciesDiscovery.NOT_FOUND);
|
tax.setScientificNameAuthorship(ConstantsSpeciesDiscovery.NOT_FOUND);
|
||||||
|
|
||||||
if(input.getCredits()!=null && !input.getCredits().isEmpty()){
|
if(input.getCredits()!=null && !input.getCredits().isEmpty()){
|
||||||
tax.setCredits(input.getCredits());
|
tax.setCredits(input.getCredits());
|
||||||
|
|
|
@ -68,7 +68,7 @@ public class IteratorPointInfo implements Stream<PointInfo> {
|
||||||
listMetaData.add(new KeyValue(Occurrence.DATAPROVIDER, NormalizeString.validateUndefined(occrs.getDataProvider())));
|
listMetaData.add(new KeyValue(Occurrence.DATAPROVIDER, NormalizeString.validateUndefined(occrs.getDataProvider())));
|
||||||
listMetaData.add(new KeyValue(Occurrence.DATASET, NormalizeString.validateUndefined(occrs.getDataSet())));
|
listMetaData.add(new KeyValue(Occurrence.DATASET, NormalizeString.validateUndefined(occrs.getDataSet())));
|
||||||
|
|
||||||
listMetaData.add(new KeyValue(Occurrence.AUTHOR, NormalizeString.validateUndefined(occrs.getAuthor())));
|
listMetaData.add(new KeyValue(Occurrence.SCIENTIFICNAMEAUTHORSHIP, NormalizeString.validateUndefined(occrs.getScientificNameAuthorship())));
|
||||||
listMetaData.add(new KeyValue(Occurrence.LSID, NormalizeString.validateUndefined(occrs.getLsid())));
|
listMetaData.add(new KeyValue(Occurrence.LSID, NormalizeString.validateUndefined(occrs.getLsid())));
|
||||||
listMetaData.add(new KeyValue(Occurrence.CREDITS, NormalizeString.validateUndefined(occrs.getCredits())));
|
listMetaData.add(new KeyValue(Occurrence.CREDITS, NormalizeString.validateUndefined(occrs.getCredits())));
|
||||||
|
|
||||||
|
|
|
@ -24,10 +24,11 @@ public class OccurenceCSVConverter implements Converter<Occurrence, List<String>
|
||||||
"dataProvider",
|
"dataProvider",
|
||||||
"dataSource",
|
"dataSource",
|
||||||
|
|
||||||
"author",
|
"scientificNameAuthorship",
|
||||||
// "lsid",
|
// "lsid",
|
||||||
"credits",
|
"credits",
|
||||||
|
|
||||||
|
"identifiedBy",
|
||||||
"recordedBy",
|
"recordedBy",
|
||||||
"eventDate",
|
"eventDate",
|
||||||
"modified",
|
"modified",
|
||||||
|
@ -56,10 +57,11 @@ public class OccurenceCSVConverter implements Converter<Occurrence, List<String>
|
||||||
fields.add(cleanValue(input.getDataProvider()));
|
fields.add(cleanValue(input.getDataProvider()));
|
||||||
fields.add(cleanValue(input.getDataSource()));
|
fields.add(cleanValue(input.getDataSource()));
|
||||||
|
|
||||||
fields.add(cleanValue(input.getAuthor()));
|
fields.add(cleanValue(input.getScientificNameAuthorship()));
|
||||||
// fields.add(cleanValue(input.getLsid()));
|
// fields.add(cleanValue(input.getLsid()));
|
||||||
fields.add(cleanValue(input.getCredits()));
|
fields.add(cleanValue(input.getCredits()));
|
||||||
|
|
||||||
|
fields.add(cleanValue(input.getIdentifiedBy()));
|
||||||
fields.add(cleanValue(input.getRecordedBy()));
|
fields.add(cleanValue(input.getRecordedBy()));
|
||||||
fields.add(cleanValue(input.getEventDate()));
|
fields.add(cleanValue(input.getEventDate()));
|
||||||
fields.add(cleanValue(input.getModified()));
|
fields.add(cleanValue(input.getModified()));
|
||||||
|
|
|
@ -31,6 +31,8 @@ public class Occurrence implements Serializable, FetchingElement {
|
||||||
public final static String COLLECTION_CODE = "collectionCode";
|
public final static String COLLECTION_CODE = "collectionCode";
|
||||||
public final static String CATALOGUE_NUMBER = "catalogueNumber";
|
public final static String CATALOGUE_NUMBER = "catalogueNumber";
|
||||||
public final static String RECORD_BY = "recordedBy";
|
public final static String RECORD_BY = "recordedBy";
|
||||||
|
public final static String IDENTIFIED_BY = "identifiedBy";
|
||||||
|
|
||||||
public final static String EVENT_DATE = "eventDate";
|
public final static String EVENT_DATE = "eventDate";
|
||||||
public final static String MODIFIED = "modified";
|
public final static String MODIFIED = "modified";
|
||||||
public final static String SCIENTIFICNAME = "scientificName";
|
public final static String SCIENTIFICNAME = "scientificName";
|
||||||
|
@ -54,7 +56,7 @@ public class Occurrence implements Serializable, FetchingElement {
|
||||||
|
|
||||||
public final static String SERVICE_ID_FIELD = "serviceIdField";
|
public final static String SERVICE_ID_FIELD = "serviceIdField";
|
||||||
|
|
||||||
public final static String AUTHOR = "author"; //USED
|
public final static String SCIENTIFICNAMEAUTHORSHIP = "scientificNameAuthorship"; //USED
|
||||||
public final static String CREDITS = "credits"; //USED
|
public final static String CREDITS = "credits"; //USED
|
||||||
public final static String LSID = "lsid"; //USED
|
public final static String LSID = "lsid"; //USED
|
||||||
public final static String PROPERTIES = "properties"; //TODO
|
public final static String PROPERTIES = "properties"; //TODO
|
||||||
|
@ -68,6 +70,7 @@ public class Occurrence implements Serializable, FetchingElement {
|
||||||
protected String collectionCode;
|
protected String collectionCode;
|
||||||
protected String catalogueNumber;
|
protected String catalogueNumber;
|
||||||
protected String recordedBy;
|
protected String recordedBy;
|
||||||
|
protected String identifiedBy;
|
||||||
protected String eventDate;
|
protected String eventDate;
|
||||||
protected String modified;
|
protected String modified;
|
||||||
protected String scientificName;
|
protected String scientificName;
|
||||||
|
@ -86,7 +89,7 @@ public class Occurrence implements Serializable, FetchingElement {
|
||||||
protected String dataProvider;
|
protected String dataProvider;
|
||||||
protected String dataSet;
|
protected String dataSet;
|
||||||
protected String dataSource;
|
protected String dataSource;
|
||||||
protected String author;
|
protected String scientificNameAuthorship;
|
||||||
protected String credits;
|
protected String credits;
|
||||||
protected String lsid;
|
protected String lsid;
|
||||||
|
|
||||||
|
@ -399,14 +402,6 @@ public class Occurrence implements Serializable, FetchingElement {
|
||||||
return dataProvider;
|
return dataProvider;
|
||||||
}
|
}
|
||||||
|
|
||||||
public String getAuthor() {
|
|
||||||
return author;
|
|
||||||
}
|
|
||||||
|
|
||||||
public void setAuthor(String author) {
|
|
||||||
this.author = author;
|
|
||||||
}
|
|
||||||
|
|
||||||
public String getCredits() {
|
public String getCredits() {
|
||||||
return credits;
|
return credits;
|
||||||
}
|
}
|
||||||
|
@ -436,6 +431,23 @@ public class Occurrence implements Serializable, FetchingElement {
|
||||||
this.properties = properties;
|
this.properties = properties;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
public String getScientificNameAuthorship() {
|
||||||
|
return scientificNameAuthorship;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setScientificNameAuthorship(String scientificNameAuthorship) {
|
||||||
|
this.scientificNameAuthorship = scientificNameAuthorship;
|
||||||
|
}
|
||||||
|
|
||||||
|
|
||||||
|
public String getIdentifiedBy() {
|
||||||
|
return identifiedBy;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setIdentifiedBy(String identifiedBy) {
|
||||||
|
this.identifiedBy = identifiedBy;
|
||||||
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
public String toString() {
|
public String toString() {
|
||||||
StringBuilder builder = new StringBuilder();
|
StringBuilder builder = new StringBuilder();
|
||||||
|
@ -449,6 +461,8 @@ public class Occurrence implements Serializable, FetchingElement {
|
||||||
builder.append(catalogueNumber);
|
builder.append(catalogueNumber);
|
||||||
builder.append(", recordedBy=");
|
builder.append(", recordedBy=");
|
||||||
builder.append(recordedBy);
|
builder.append(recordedBy);
|
||||||
|
builder.append(", identifiedBy=");
|
||||||
|
builder.append(identifiedBy);
|
||||||
builder.append(", eventDate=");
|
builder.append(", eventDate=");
|
||||||
builder.append(eventDate);
|
builder.append(eventDate);
|
||||||
builder.append(", modified=");
|
builder.append(", modified=");
|
||||||
|
@ -485,8 +499,8 @@ public class Occurrence implements Serializable, FetchingElement {
|
||||||
builder.append(dataSet);
|
builder.append(dataSet);
|
||||||
builder.append(", dataSource=");
|
builder.append(", dataSource=");
|
||||||
builder.append(dataSource);
|
builder.append(dataSource);
|
||||||
builder.append(", author=");
|
builder.append(", scientificNameAuthorship=");
|
||||||
builder.append(author);
|
builder.append(scientificNameAuthorship);
|
||||||
builder.append(", credits=");
|
builder.append(", credits=");
|
||||||
builder.append(credits);
|
builder.append(credits);
|
||||||
builder.append(", lsid=");
|
builder.append(", lsid=");
|
||||||
|
@ -497,7 +511,6 @@ public class Occurrence implements Serializable, FetchingElement {
|
||||||
builder.append(existsProperties);
|
builder.append(existsProperties);
|
||||||
builder.append("]");
|
builder.append("]");
|
||||||
return builder.toString();
|
return builder.toString();
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
||||||
}
|
}
|
||||||
|
|
|
@ -57,7 +57,7 @@ public class ResultRow implements FetchingElement, SelectableElement, Serializab
|
||||||
public static final String GENUS_ID = "genusID";
|
public static final String GENUS_ID = "genusID";
|
||||||
public static final String SPECIES_ID = "speciesID";
|
public static final String SPECIES_ID = "speciesID";
|
||||||
|
|
||||||
public final static String AUTHOR = "author"; //USED
|
public final static String SCIENTIFICNAMEAUTHORSHIP = "scientificNameAuthorship"; //USED
|
||||||
public final static String CREDITS = "credits"; //USED
|
public final static String CREDITS = "credits"; //USED
|
||||||
public final static String LSID = "lsid"; //USED
|
public final static String LSID = "lsid"; //USED
|
||||||
public final static String PROPERTIES = "properties"; //USED
|
public final static String PROPERTIES = "properties"; //USED
|
||||||
|
@ -105,7 +105,7 @@ public class ResultRow implements FetchingElement, SelectableElement, Serializab
|
||||||
protected String familyID;
|
protected String familyID;
|
||||||
protected String genusID;
|
protected String genusID;
|
||||||
protected String speciesID;
|
protected String speciesID;
|
||||||
protected String author;
|
protected String scientificNameAuthorship;
|
||||||
protected String credits;
|
protected String credits;
|
||||||
protected String lsid;
|
protected String lsid;
|
||||||
// protected String propertiesAsXml;
|
// protected String propertiesAsXml;
|
||||||
|
@ -496,14 +496,6 @@ public class ResultRow implements FetchingElement, SelectableElement, Serializab
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
||||||
public String getAuthor() {
|
|
||||||
return author;
|
|
||||||
}
|
|
||||||
|
|
||||||
public void setAuthor(String author) {
|
|
||||||
this.author = author;
|
|
||||||
}
|
|
||||||
|
|
||||||
public String getCredits() {
|
public String getCredits() {
|
||||||
return credits;
|
return credits;
|
||||||
}
|
}
|
||||||
|
@ -567,7 +559,18 @@ public class ResultRow implements FetchingElement, SelectableElement, Serializab
|
||||||
public void setProperties(List<ItemParameter> properties) {
|
public void setProperties(List<ItemParameter> properties) {
|
||||||
this.properties = properties;
|
this.properties = properties;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
||||||
|
public String getScientificNameAuthorship() {
|
||||||
|
return scientificNameAuthorship;
|
||||||
|
}
|
||||||
|
|
||||||
|
|
||||||
|
public void setScientificNameAuthorship(String scientificNameAuthorship) {
|
||||||
|
this.scientificNameAuthorship = scientificNameAuthorship;
|
||||||
|
}
|
||||||
|
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
public String toString() {
|
public String toString() {
|
||||||
StringBuilder builder = new StringBuilder();
|
StringBuilder builder = new StringBuilder();
|
||||||
|
@ -633,8 +636,8 @@ public class ResultRow implements FetchingElement, SelectableElement, Serializab
|
||||||
builder.append(genusID);
|
builder.append(genusID);
|
||||||
builder.append(", speciesID=");
|
builder.append(", speciesID=");
|
||||||
builder.append(speciesID);
|
builder.append(speciesID);
|
||||||
builder.append(", author=");
|
builder.append(", scientificNameAuthorship=");
|
||||||
builder.append(author);
|
builder.append(scientificNameAuthorship);
|
||||||
builder.append(", credits=");
|
builder.append(", credits=");
|
||||||
builder.append(credits);
|
builder.append(credits);
|
||||||
builder.append(", lsid=");
|
builder.append(", lsid=");
|
||||||
|
@ -646,5 +649,4 @@ public class ResultRow implements FetchingElement, SelectableElement, Serializab
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
}
|
}
|
||||||
|
|
|
@ -45,7 +45,7 @@ public class TaxonomyRow implements FetchingElement, Serializable, TaxonomyInter
|
||||||
public final static String SERVICE_ID_FIELD = "serviceIdField";
|
public final static String SERVICE_ID_FIELD = "serviceIdField";
|
||||||
public final static String STATUS_REMARKS = "statusRemarks";
|
public final static String STATUS_REMARKS = "statusRemarks";
|
||||||
|
|
||||||
public final static String AUTHOR = "author"; //USED
|
public final static String SCIENTIFICNAMEAUTHORSHIP = "scientificNameAuthorship"; //USED
|
||||||
public final static String CREDITS = "credits"; //USED
|
public final static String CREDITS = "credits"; //USED
|
||||||
public final static String LSID = "lsid"; //USED
|
public final static String LSID = "lsid"; //USED
|
||||||
public final static String PROPERTIES = "properties"; //TODO
|
public final static String PROPERTIES = "properties"; //TODO
|
||||||
|
@ -64,7 +64,7 @@ public class TaxonomyRow implements FetchingElement, Serializable, TaxonomyInter
|
||||||
@Id
|
@Id
|
||||||
@GeneratedValue(strategy = GenerationType.IDENTITY)
|
@GeneratedValue(strategy = GenerationType.IDENTITY)
|
||||||
protected int id;
|
protected int id;
|
||||||
protected String author;
|
protected String scientificNameAuthorship;
|
||||||
protected String credits;
|
protected String credits;
|
||||||
protected String lsid;
|
protected String lsid;
|
||||||
|
|
||||||
|
@ -377,15 +377,6 @@ public class TaxonomyRow implements FetchingElement, Serializable, TaxonomyInter
|
||||||
this.statusRemarks = statusRemarks;
|
this.statusRemarks = statusRemarks;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
||||||
public String getAuthor() {
|
|
||||||
return author;
|
|
||||||
}
|
|
||||||
|
|
||||||
public void setAuthor(String author) {
|
|
||||||
this.author = author;
|
|
||||||
}
|
|
||||||
|
|
||||||
public String getCredits() {
|
public String getCredits() {
|
||||||
return credits;
|
return credits;
|
||||||
}
|
}
|
||||||
|
@ -434,13 +425,31 @@ public class TaxonomyRow implements FetchingElement, Serializable, TaxonomyInter
|
||||||
this.parentIndex = parentIndex;
|
this.parentIndex = parentIndex;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
||||||
|
/* (non-Javadoc)
|
||||||
|
* Comparable on insertion order
|
||||||
|
* @see java.lang.Comparable#compareTo(java.lang.Object)
|
||||||
|
*/
|
||||||
|
@Override
|
||||||
|
public int compareTo(TaxonomyRow o) {
|
||||||
|
return parentIndex - o.getParentIndex();
|
||||||
|
}
|
||||||
|
|
||||||
|
public String getScientificNameAuthorship() {
|
||||||
|
return scientificNameAuthorship;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setScientificNameAuthorship(String scientificNameAuthorship) {
|
||||||
|
this.scientificNameAuthorship = scientificNameAuthorship;
|
||||||
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
public String toString() {
|
public String toString() {
|
||||||
StringBuilder builder = new StringBuilder();
|
StringBuilder builder = new StringBuilder();
|
||||||
builder.append("TaxonomyRow [id=");
|
builder.append("TaxonomyRow [id=");
|
||||||
builder.append(id);
|
builder.append(id);
|
||||||
builder.append(", author=");
|
builder.append(", scientificNameAuthorship=");
|
||||||
builder.append(author);
|
builder.append(scientificNameAuthorship);
|
||||||
builder.append(", credits=");
|
builder.append(", credits=");
|
||||||
builder.append(credits);
|
builder.append(credits);
|
||||||
builder.append(", lsid=");
|
builder.append(", lsid=");
|
||||||
|
@ -504,13 +513,5 @@ public class TaxonomyRow implements FetchingElement, Serializable, TaxonomyInter
|
||||||
builder.append("]");
|
builder.append("]");
|
||||||
return builder.toString();
|
return builder.toString();
|
||||||
}
|
}
|
||||||
|
|
||||||
/* (non-Javadoc)
|
|
||||||
* Comparable on insertion order
|
|
||||||
* @see java.lang.Comparable#compareTo(java.lang.Object)
|
|
||||||
*/
|
|
||||||
@Override
|
|
||||||
public int compareTo(TaxonomyRow o) {
|
|
||||||
return parentIndex - o.getParentIndex();
|
|
||||||
}
|
|
||||||
}
|
}
|
||||||
|
|
|
@ -7,13 +7,22 @@ import static org.gcube.data.spd.client.plugins.AbstractPlugin.manager;
|
||||||
|
|
||||||
import java.util.concurrent.TimeUnit;
|
import java.util.concurrent.TimeUnit;
|
||||||
|
|
||||||
|
import org.gcube.application.framework.core.session.ASLSession;
|
||||||
|
import org.gcube.application.framework.core.session.SessionManager;
|
||||||
import org.gcube.common.scope.api.ScopeProvider;
|
import org.gcube.common.scope.api.ScopeProvider;
|
||||||
import org.gcube.data.spd.client.proxies.Manager;
|
import org.gcube.data.spd.client.proxies.Manager;
|
||||||
import org.gcube.data.spd.model.exceptions.InvalidQueryException;
|
import org.gcube.data.spd.model.exceptions.InvalidQueryException;
|
||||||
import org.gcube.data.spd.model.products.ResultElement;
|
import org.gcube.data.spd.model.products.ResultElement;
|
||||||
|
import org.gcube.data.spd.model.products.ResultItem;
|
||||||
import org.gcube.data.spd.stubs.exceptions.UnsupportedCapabilityException;
|
import org.gcube.data.spd.stubs.exceptions.UnsupportedCapabilityException;
|
||||||
import org.gcube.data.spd.stubs.exceptions.UnsupportedPluginException;
|
import org.gcube.data.spd.stubs.exceptions.UnsupportedPluginException;
|
||||||
import org.gcube.data.streams.Stream;
|
import org.gcube.data.streams.Stream;
|
||||||
|
import org.gcube.portlets.user.speciesdiscovery.server.service.ResultItemConverter;
|
||||||
|
import org.gcube.portlets.user.speciesdiscovery.server.service.StreamIterator;
|
||||||
|
import org.gcube.portlets.user.speciesdiscovery.server.stream.CastConverter;
|
||||||
|
import org.gcube.portlets.user.speciesdiscovery.server.stream.CloseableIterator;
|
||||||
|
import org.gcube.portlets.user.speciesdiscovery.server.stream.ConversionIterator;
|
||||||
|
import org.gcube.portlets.user.speciesdiscovery.shared.ResultRow;
|
||||||
|
|
||||||
/**
|
/**
|
||||||
* @author "Federico De Faveri defaveri@isti.cnr.it"
|
* @author "Federico De Faveri defaveri@isti.cnr.it"
|
||||||
|
@ -27,11 +36,15 @@ public class ServiceQuery {
|
||||||
* @throws InvalidQueryException
|
* @throws InvalidQueryException
|
||||||
* @throws UnsupportedCapabilityException
|
* @throws UnsupportedCapabilityException
|
||||||
*/
|
*/
|
||||||
|
|
||||||
|
private static String username = "test.user";
|
||||||
|
|
||||||
public static void main(String[] args) throws InvalidQueryException, UnsupportedPluginException, UnsupportedCapabilityException {
|
public static void main(String[] args) throws InvalidQueryException, UnsupportedPluginException, UnsupportedCapabilityException {
|
||||||
String scope = "/gcube/devsec";
|
String scope = "/gcube/devsec";
|
||||||
// String scope = "/d4science.research-infrastructures.eu/gCubeApps/BiodiversityResearchEnvironment"; //Production
|
// String scope = "/d4science.research-infrastructures.eu/gCubeApps/BiodiversityResearchEnvironment"; //Production
|
||||||
ScopeProvider.instance.set(scope);
|
ScopeProvider.instance.set(scope);
|
||||||
|
|
||||||
|
ASLSession session = SessionManager.getInstance().getASLSession("123", username);
|
||||||
|
|
||||||
Manager call = manager().withTimeout(3, TimeUnit.MINUTES).build();
|
Manager call = manager().withTimeout(3, TimeUnit.MINUTES).build();
|
||||||
|
|
||||||
|
@ -45,17 +58,45 @@ public class ServiceQuery {
|
||||||
|
|
||||||
System.out.println("start query...");
|
System.out.println("start query...");
|
||||||
|
|
||||||
Stream<ResultElement> results = call.search("SEARCH BY SN 'sarda sarda' RETURN Product");
|
Stream<ResultElement> results = call.search("SEARCH BY SN 'Latimeria chalumnae' IN GBIF RETURN Product HAVING xpath(\"//product[type='Occurrence' and count>0]\")");
|
||||||
|
|
||||||
|
// Stream<ResultElement> results = call.search("SEARCH BY SN 'Palinurus elephas' IN WoRMS RETURN Taxon");
|
||||||
|
|
||||||
|
StreamIterator<ResultElement> input = new StreamIterator<ResultElement>(results);
|
||||||
|
|
||||||
|
|
||||||
|
System.out.println("Results from service...");
|
||||||
int i=0;
|
int i=0;
|
||||||
if (results.hasNext()) {
|
while(results.hasNext()) {
|
||||||
ResultElement elem = results.next();
|
ResultElement elem = results.next();
|
||||||
System.out.println(++i +") el: "+elem.getId());
|
System.out.println(++i +") el: "+elem.getId() +" type: "+elem.getType().name());
|
||||||
|
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
||||||
|
System.out.println("Results from conversion...");
|
||||||
|
ConversionIterator<ResultElement, ResultItem> caster = buildCaster(input);
|
||||||
|
|
||||||
|
//from ResultItem to ResultRow
|
||||||
|
ResultItemConverter converter = new ResultItemConverter(session);
|
||||||
|
ConversionIterator<ResultItem, ResultRow> inputConverter = new ConversionIterator<ResultItem, ResultRow>(caster, converter);
|
||||||
|
|
||||||
|
while (inputConverter.hasNext()) {
|
||||||
|
ResultRow row = inputConverter.next();
|
||||||
|
|
||||||
|
System.out.println(++i +") row: "+row);
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
|
||||||
results.close();
|
results.close();
|
||||||
System.out.println("DONE");
|
System.out.println("DONE");
|
||||||
}
|
}
|
||||||
|
|
||||||
|
protected static <I,O> ConversionIterator<I, O> buildCaster(CloseableIterator<I> input)
|
||||||
|
{
|
||||||
|
CastConverter<I, O> elementConverter = new CastConverter<I, O>();
|
||||||
|
ConversionIterator<I, O> caster = new ConversionIterator<I, O>(input, elementConverter);
|
||||||
|
return caster;
|
||||||
|
}
|
||||||
|
|
||||||
}
|
}
|
||||||
|
|
Reference in New Issue