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/**
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* Copyright (C) 2018 EDIT
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* European Distributed Institute of Taxonomy
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* http://www.e-taxonomy.eu
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*
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* The contents of this file are subject to the Mozilla Public License Version 1.1
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* See LICENSE.TXT at the top of this package for the full license terms.
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*/
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package eu.etaxonomy.taxeditor.editor.descriptiveDataSet.matrix;
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import java.util.ArrayList;
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import java.util.Collection;
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import java.util.List;
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import java.util.Set;
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import java.util.UUID;
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import java.util.stream.Collectors;
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import org.eclipse.core.runtime.ICoreRunnable;
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import org.eclipse.core.runtime.IProgressMonitor;
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import org.eclipse.core.runtime.SubMonitor;
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import org.eclipse.core.runtime.jobs.IJobChangeEvent;
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import org.eclipse.core.runtime.jobs.Job;
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import org.eclipse.core.runtime.jobs.JobChangeAdapter;
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import org.eclipse.jface.layout.GridDataFactory;
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import org.eclipse.jface.viewers.IStructuredSelection;
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import org.eclipse.jface.window.Window;
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import org.eclipse.jface.wizard.WizardDialog;
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import org.eclipse.swt.SWT;
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import org.eclipse.swt.events.SelectionAdapter;
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import org.eclipse.swt.events.SelectionEvent;
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import org.eclipse.swt.layout.RowLayout;
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import org.eclipse.swt.widgets.Button;
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import org.eclipse.swt.widgets.Composite;
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import eu.etaxonomy.cdm.api.application.CdmApplicationState;
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import eu.etaxonomy.cdm.api.service.IDescriptiveDataSetService;
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import eu.etaxonomy.cdm.api.service.ITaxonNodeService;
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import eu.etaxonomy.cdm.api.service.UpdateResult;
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import eu.etaxonomy.cdm.api.service.description.AggregationMode;
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import eu.etaxonomy.cdm.api.service.description.StructuredDescriptionAggregationConfiguration;
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import eu.etaxonomy.cdm.api.service.dto.RowWrapperDTO;
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import eu.etaxonomy.cdm.common.monitor.IRemotingProgressMonitor;
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import eu.etaxonomy.cdm.filter.TaxonNodeFilter;
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import eu.etaxonomy.cdm.model.description.DescriptiveDataSet;
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import eu.etaxonomy.cdm.model.location.NamedArea;
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import eu.etaxonomy.cdm.model.taxon.Taxon;
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import eu.etaxonomy.cdm.model.taxon.TaxonNode;
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import eu.etaxonomy.cdm.persistence.dto.SpecimenNodeWrapper;
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import eu.etaxonomy.cdm.persistence.dto.TaxonNodeDto;
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import eu.etaxonomy.taxeditor.editor.internal.TaxeditorEditorPlugin;
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import eu.etaxonomy.taxeditor.editor.l10n.Messages;
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import eu.etaxonomy.taxeditor.model.ImageResources;
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import eu.etaxonomy.taxeditor.model.MessagingUtils;
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import eu.etaxonomy.taxeditor.store.CdmStore;
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import eu.etaxonomy.taxeditor.store.StoreUtil;
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import eu.etaxonomy.taxeditor.ui.dialog.configurator.StructuredAggregationConfigurationWizard;
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import eu.etaxonomy.taxeditor.ui.dialog.selection.TaxonSelectionDialog;
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/**
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* @author pplitzner
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* @since Jul 9, 2018
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*/
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public class CharacterMatrixBottomToolbar extends Composite{
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private CharacterMatrix matrix;
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public CharacterMatrixBottomToolbar(CharacterMatrix matrix, int style) {
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super(matrix, style);
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this.matrix = matrix;
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init();
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}
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private void init() {
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setLayout(new RowLayout());
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GridDataFactory.fillDefaults().grab(true, false).applyTo(this);
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/**
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* Add description button
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*/
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Button btnAddDescription = new Button(this, SWT.PUSH);
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btnAddDescription.setImage(ImageResources.getImage(ImageResources.ADD_ICON_GREEN));
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btnAddDescription.addSelectionListener(new SelectionAdapter() {
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@Override
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public void widgetSelected(SelectionEvent e) {
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if(StoreUtil.promptCheckIsDirty(matrix.getPart())){
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return;
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}
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SpecimenSelectionDialog dialog = new SpecimenSelectionDialog(matrix.getShell(), matrix);
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if(dialog.open()==Window.OK){
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Collection<SpecimenNodeWrapper> wrappers = dialog.getSpecimen();
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if(wrappers.stream().anyMatch(wrapper->wrapper.getTaxonDescriptionUuid()==null)
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&& !MessagingUtils.confirmDialog(
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"Create Taxon Association",
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"Some specimens are not linked with taxon via IndividualsAssociation yet.\n"
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+ "Do you want to create this association?")){
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return;
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}
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addRowsToMatrix(wrappers, matrix.getDescriptiveDataSet().getUuid());
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wrappers.forEach(wrapper->matrix.getSpecimenCache().remove(wrapper));
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}
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}
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});
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/**
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* Remove description button
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*/
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Button btnRemoveDescription = new Button(this, SWT.PUSH);
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btnRemoveDescription.setImage(ImageResources.getImage(ImageResources.ACTIVE_DELETE_ICON));
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btnRemoveDescription.addSelectionListener(new SelectionAdapter() {
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@Override
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public void widgetSelected(SelectionEvent e) {
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if(StoreUtil.promptCheckIsDirty(matrix.getPart())){
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return;
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}
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if(!MessagingUtils.confirmDialog(Messages.CharacterMatrixBottomToolbar_CONFIRM_DELETE_TITLE, Messages.CharacterMatrixBottomToolbar_CONFIRM_DELETE_MESSAGE)){
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return;
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}
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int[] fullySelectedRowPositions = matrix.getBodyLayer().getSelectionLayer().getFullySelectedRowPositions();
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List<RowWrapperDTO> toRemove = new ArrayList<>();
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for (int i : fullySelectedRowPositions) {
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Object rowObject = matrix.getBodyDataProvider().getRowObject(i);
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if(rowObject instanceof RowWrapperDTO){
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toRemove.add((RowWrapperDTO) rowObject);
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}
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}
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toRemove.forEach(rowToRemove -> {
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matrix.getDescriptions().remove(rowToRemove);
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CdmStore.getService(IDescriptiveDataSetService.class).removeDescription(
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rowToRemove.getDescription().getUuid(), matrix.getDescriptiveDataSet().getUuid());
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});
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}
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});
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/**
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* Aggregate button
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*/
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Button btnAggregate = new Button(this, SWT.PUSH);
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btnAggregate.setText(Messages.CharacterMatrixBottomToolbar_AGGREGATE);
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btnAggregate.addSelectionListener(new SelectionAdapter() {
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@Override
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public void widgetSelected(SelectionEvent e) {
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if(StoreUtil.promptCheckIsDirty(matrix.getPart())){
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return;
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}
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aggregatDescriptiveDataSet(matrix.getDescriptiveDataSet().getUuid());
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}
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});
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/**
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* Key generation button
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*/
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Button btnGenerateKey = new Button(this, SWT.PUSH);
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btnGenerateKey.setText("Generate Polytomous Key");
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btnGenerateKey.addSelectionListener(new SelectionAdapter() {
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@Override
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public void widgetSelected(SelectionEvent e) {
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if(StoreUtil.promptCheckIsDirty(matrix.getPart())){
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return;
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}
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Set<TaxonNodeDto> nodeDtos = matrix.getDescriptiveDataSet().getTaxonSubtreeFilter().stream()
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.map(node->new TaxonNodeDto(node))
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.collect(Collectors.toSet());
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TaxonNodeDto parentDto = CdmStore.getService(ITaxonNodeService.class).findCommonParentDto(nodeDtos);
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UUID taxonUuid = parentDto.getTaxonUuid();
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int response = MessagingUtils.confirmDialog(
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"Choose taxonomic scope",
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String.format("The common parent taxon of this data set is :\n%s\n\n"
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+ "Do you want to use this as the taxonomic scope for the polytomous key?"
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, parentDto.getTaxonTitleCache()), "Yes", "Choose different taxon", "Cancel");
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if(response==2){
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return;
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}
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else if(response==1){
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Taxon taxon = TaxonSelectionDialog.selectTaxon(getShell(), null);
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if(taxon==null){
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return;
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}
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taxonUuid = taxon.getUuid();
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}
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generateKey(matrix.getDescriptiveDataSet().getUuid(), taxonUuid);
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}
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});
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}
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private void aggregatDescriptiveDataSet(UUID descriptiveDataSetUuid){
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// FIXME: set taxon node filter for config (this is still not used in the aggregation)
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StructuredDescriptionAggregationConfiguration config = StructuredDescriptionAggregationConfiguration.NewInstance(
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null, null);
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IStructuredSelection sel = matrix.getSelection();
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Object o = sel.getFirstElement();
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TaxonNodeFilter filter = TaxonNodeFilter.NewRankInstance(matrix.getDescriptiveDataSet().getMinRank(),
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matrix.getDescriptiveDataSet().getMaxRank());
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for (NamedArea namedArea : matrix.getDescriptiveDataSet().getGeoFilter()) {
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filter = filter.orArea(namedArea.getUuid());
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}
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// for (TaxonNode taxonNode : matrix.getDescriptiveDataSet().getTaxonSubtreeFilter()) {
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// filter = filter.orSubtree(taxonNode);
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// }
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if (o instanceof TaxonNodeDto){
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filter = filter.orSubtree(CdmStore.getService(ITaxonNodeService.class).load(((TaxonNodeDto)o).getUuid()));
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}else{
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for (TaxonNode taxonNode : matrix.getDescriptiveDataSet().getTaxonSubtreeFilter()) {
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filter = filter.orSubtree(taxonNode);
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}
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}
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config.setTaxonNodeFilter(filter);
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config.setDatasetUuid(matrix.getDescriptiveDataSet().getUuid());
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config.setAggregateToHigherRanks(true);
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config.setAggregationMode(AggregationMode.byAreasAndRanks());
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config.setAdaptBatchSize(false);
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StructuredAggregationConfigurationWizard aggregationWizard = new StructuredAggregationConfigurationWizard(config, this.matrix.getDescriptiveDataSet());
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WizardDialog dialog = new WizardDialog(StoreUtil.getShell(),
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aggregationWizard);
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int open = dialog.open();
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if (open != Window.OK){
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return;
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}
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UUID monitorUuid = CdmApplicationState.getLongRunningTasksService().invoke(config);
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String jobLabel = "Aggregate Descriptive Data Set";
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Job job = Job.create(jobLabel, (ICoreRunnable) monitor -> {
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SubMonitor subMonitor = SubMonitor.convert(monitor);
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subMonitor.beginTask(jobLabel, IProgressMonitor.UNKNOWN);
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IRemotingProgressMonitor remotingMonitor;
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try {
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remotingMonitor = CdmStore.getProgressMonitorClientManager()
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.pollMonitor(jobLabel,
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monitorUuid,
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50,
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null,
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(List)null,
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subMonitor);
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Object resultObject = remotingMonitor.getResult();
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if(resultObject instanceof Exception){
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MessagingUtils.errorDialog("Aggregation failed", this, "Aggregation was not successfull", TaxeditorEditorPlugin.PLUGIN_ID, (Exception)resultObject, true, true);
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}
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else if(resultObject instanceof UpdateResult){
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DescriptiveDataSet dataSet = (DescriptiveDataSet) ((UpdateResult) resultObject).getCdmEntity();
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dataSet = matrix.getCdmEntitiySession().load(dataSet, true);
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// update local dataset
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matrix.setDescriptiveDataSet(dataSet);
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matrix.loadDescriptions(descriptiveDataSetUuid, false);
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}
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} catch (InterruptedException e) {
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return;
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}
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monitor.done();
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});
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job.addJobChangeListener(new JobChangeAdapter(){
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@Override
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public void done(IJobChangeEvent event) {
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CharacterMatrixBottomToolbar.this.getDisplay().asyncExec(()->{
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matrix.redraw();
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});
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}
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});
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job.schedule();
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}
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private void addRowsToMatrix(Collection<SpecimenNodeWrapper> wrappers, UUID descriptiveDataSetUuid){
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UUID monitorUuid = CdmApplicationState.getLongRunningTasksService().addRowWrapperToDataset(wrappers, descriptiveDataSetUuid);
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String jobLabel = "Add specimens to matrix";
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Job job = Job.create(jobLabel, (ICoreRunnable) monitor -> {
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SubMonitor subMonitor = SubMonitor.convert(monitor);
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subMonitor.beginTask(jobLabel, IProgressMonitor.UNKNOWN);
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IRemotingProgressMonitor remotingMonitor;
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try {
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remotingMonitor = CdmStore.getProgressMonitorClientManager()
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.pollMonitor(jobLabel,
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monitorUuid,
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50,
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null,
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(List)null,
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subMonitor);
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Object resultObject = remotingMonitor.getResult();
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if(resultObject instanceof Exception){
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MessagingUtils.errorDialog("Adding specimens failed", this, "Adding specimens was not successfull", TaxeditorEditorPlugin.PLUGIN_ID, (Exception)resultObject, true, true);
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}
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else if(resultObject instanceof UpdateResult){
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UpdateResult result = (UpdateResult)resultObject;
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if(!result.getExceptions().isEmpty()){
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MessagingUtils.warningDialog(Messages.CharacterMatrixBottomToolbar_ERROR_ROW_CREATION_TITLE, this,
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String.format(Messages.CharacterMatrixBottomToolbar_ERROR_ROW_CREATION_MESSAGE, result.getExceptions()
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.stream().map(ex->ex.toString())
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.collect(Collectors.joining("\n"))));
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}
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DescriptiveDataSet dataSet = (DescriptiveDataSet) result.getCdmEntity();
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dataSet = matrix.getCdmEntitiySession().load(dataSet, true);
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// update local dataset
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matrix.setDescriptiveDataSet(dataSet);
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matrix.loadDescriptions(descriptiveDataSetUuid, false);
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}
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} catch (InterruptedException e) {
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return;
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}
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monitor.done();
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});
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job.addJobChangeListener(new JobChangeAdapter(){
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@Override
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public void done(IJobChangeEvent event) {
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CharacterMatrixBottomToolbar.this.getDisplay().asyncExec(()->{
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matrix.redraw();
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});
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}
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});
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job.schedule();
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}
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313
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private void generateKey(UUID datasetUuid, UUID taxonUuid) {
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314
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UUID monitorUuid = CdmApplicationState.getLongRunningTasksService().generatePolytomousKey(datasetUuid, taxonUuid);
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316
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String jobLabel = "Generate polytomous key";
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Job job = Job.create(jobLabel, (ICoreRunnable) monitor -> {
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SubMonitor subMonitor = SubMonitor.convert(monitor);
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320
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subMonitor.beginTask(jobLabel, IProgressMonitor.UNKNOWN);
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321
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IRemotingProgressMonitor remotingMonitor;
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try {
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remotingMonitor = CdmStore.getProgressMonitorClientManager()
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.pollMonitor(jobLabel,
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monitorUuid,
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50,
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null,
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(List)null,
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subMonitor);
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Object resultObject = remotingMonitor.getResult();
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331
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if(resultObject instanceof Exception){
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MessagingUtils.errorDialog("Key generation failed", this, "Generating the polytomous key was not successfull", TaxeditorEditorPlugin.PLUGIN_ID, (Exception)resultObject, true, true);
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}
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334
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} catch (InterruptedException e) {
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return;
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}
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monitor.done();
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});
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339
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job.schedule();
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340
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341
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}
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342
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343
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}
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