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package eu.etaxonomy.taxeditor.molecular.handler;
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import info.bioinfweb.libralign.pherogram.model.PherogramComponentModel;
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import java.net.URI;
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import org.eclipse.core.commands.AbstractHandler;
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import org.eclipse.core.commands.ExecutionEvent;
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import org.eclipse.core.commands.ExecutionException;
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import org.eclipse.jface.viewers.ISelection;
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import org.eclipse.jface.viewers.TreeNode;
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import org.eclipse.ui.PartInitException;
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import org.eclipse.ui.handlers.HandlerUtil;
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import eu.etaxonomy.cdm.model.media.MediaUtils;
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import eu.etaxonomy.cdm.model.molecular.SingleRead;
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import eu.etaxonomy.taxeditor.editor.EditorUtil;
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import eu.etaxonomy.taxeditor.model.MessagingUtils;
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import eu.etaxonomy.taxeditor.molecular.TaxeditorMolecularPlugin;
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import eu.etaxonomy.taxeditor.molecular.editor.AlignmentEditor;
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import eu.etaxonomy.taxeditor.molecular.editor.PherogramViewPart;
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/**
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* Displays an undistorted pherogram with {@link PherogramViewPart}.
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*
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* @author Ben Stöver
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*/
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public class ShowPherogramHandler extends AbstractHandler {
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public static void showPherogram(PherogramComponentModel model) throws PartInitException {
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PherogramViewPart.createView(model);
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}
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@Override
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public Object execute(ExecutionEvent event) throws ExecutionException {
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ISelection currentSelection = HandlerUtil.getCurrentSelection(event);
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TreeNode treeNodeOfSelection = EditorUtil.getTreeNodeOfSelection(currentSelection);
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if (treeNodeOfSelection != null && treeNodeOfSelection.getValue() instanceof SingleRead) {
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//TODO Can the parent node (containing the cut positions) be extracted from SingleRead?
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try {
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SingleRead singleRead = (SingleRead)treeNodeOfSelection.getValue();
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URI uri = null;
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if (singleRead.getPherogram() != null) { // Pherogram objects without URI are possible.
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uri = MediaUtils.getFirstMediaRepresentationPart(singleRead.getPherogram()).getUri();
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}
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if (uri == null) {
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MessagingUtils.messageDialog("No pherogram available", this,
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"The selected read does not have an associated pherogram.");
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}
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else {
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showPherogram(new PherogramComponentModel(AlignmentEditor.readPherogram(uri)));
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}
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}
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catch (Exception e) {
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MessagingUtils.errorDialog("Error", null, e.getLocalizedMessage(), TaxeditorMolecularPlugin.PLUGIN_ID,
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e, false);
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}
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}
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return null;
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}
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}
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