@Override
public void run() throws TaxomaticException {
List<Taxon> taxaToSave = new ArrayList<Taxon>();
for (Taxon mergedTaxon : taxaToMerge) {
mergedTaxon.setStatus(TaxonStatus.STATUS_SYNONYM);
{
Synonym synonym = Taxon.synonymizeTaxon(mergedTaxon);
synonym.setStatus(Synonym.MERGE);
synonym.setTaxon(mergeTarget);
mergeTarget.getSynonyms().add(synonym);
}
{
Synonym synonym = Taxon.synonymizeTaxon(mergeTarget);
synonym.setStatus(Synonym.MERGE);
synonym.setTaxon(mergedTaxon);
mergedTaxon.getSynonyms().add(synonym);
}
for (Taxon child : mergedTaxon.getChildren()) {
child.setParent(mergeTarget);
mergeTarget.getChildren().add(child);
taxaToSave.add(child);
}
taxaToSave.add(mergedTaxon);
}
taxaToSave.add(mergeTarget);
taxomaticIO.updateAndSave(taxaToSave, operation.getUser(), true);
recordOperationHistory(taxaToSave, operation);
}
public void onClose() {
String errorMessage = null;
if (currentNode.getLevel() < TaxonLevel.SPECIES) {
if (parentToChildList.size() < 1) {
errorMessage =
"You must create at least one new taxon to split "
+ currentNode.getFullName()
+ " into.";
}
} else {
if (parentToChildList.size() < 2) {
errorMessage =
"You must create at least two new taxon to split "
+ currentNode.getFullName()
+ " into.";
} else if (children.getItems().size() != 0) {
errorMessage = "You must remove all children from " + currentNode.getFullName() + ".";
}
}
if (errorMessage == null) {
TaxomaticUtils.impl.performSplit(
currentNode,
parentToChildList,
new GenericCallback<String>() {
public void onFailure(Throwable arg0) {
// Error message already displayed by default callback.
}
public void onSuccess(String arg0) {
hide();
if (currentNode.getLevel() < TaxonLevel.SPECIES) {
WindowUtils.confirmAlert(
"Saved",
"The split was successful. However, the status of "
+ currentNode.getFullName()
+ " was not modified. Would you like to edit the status of "
+ currentNode.getFullName()
+ "?",
new WindowUtils.SimpleMessageBoxListener() {
@Override
public void onYes() {
TaxonBasicEditor editor = new TaxonBasicEditor();
editor.show();
editor.center();
}
},
"Yes, edit",
"No, all finished");
} else {
WindowUtils.infoAlert("Saved", "Changes saved.");
}
}
});
} else {
WindowUtils.errorAlert("Error", errorMessage);
}
}
/*
* mergeTarget,toMerge,toMerge,toMerge
*/
private String generateInstructions(Taxon mergeTarget, List<Taxon> taxaToMerge) {
StringBuilder builder = new StringBuilder();
builder.append(mergeTarget.getId());
for (Taxon taxon : taxaToMerge) {
builder.append(',');
builder.append(taxon.getId());
}
return builder.toString();
}
private HTML getInstructions() {
return new HTML(
"<b>Instructions:</b> Click \"Create New Taxa\" to create one or more new taxa, "
+ "then move the children below, if any exist, to those new taxa."
+ "Use CTRL+Click to select multiple children at the same time. "
+ "You should move all the children to one of the new taxa as "
+ currentNode.getFullName()
+ " will become deprecated.");
}
private String generateDetails(Taxon mergeTarget, List<Taxon> taxaToMerge) {
StringBuilder builder = new StringBuilder();
builder.append("Merged the following taxa into " + mergeTarget.getFullName() + ": ");
for (Iterator<Taxon> iter = taxaToMerge.iterator(); iter.hasNext(); ) {
builder.append(iter.next().getFullName());
if (iter.hasNext()) builder.append(", ");
}
return builder.toString();
}
private LayoutContainer getLeftSide() {
// BorderLayout layout = new BorderLayout();
RowLayout layout = new RowLayout(Orientation.VERTICAL);
// layout.setMargin(0);
// layout.setSpacing(0);
LayoutContainer container = new LayoutContainer();
container.setLayout(layout);
container.setLayoutOnChange(true);
container.setSize(PANEL_WIDTH / 2, PANEL_HEIGHT);
children = new DataList();
children.setSelectionMode(SelectionMode.MULTI);
TaxonomyCache.impl.getTaxonChildren(
currentNode.getId() + "",
new GenericCallback<List<Taxon>>() {
public void onFailure(Throwable caught) {
WindowUtils.errorAlert("Error", "Could not fetch children, please try again later.");
}
public void onSuccess(List<Taxon> result) {
for (Taxon taxon : result) {
DataListItem li = new DataListItem(taxon.getFullName());
li.setData("nodeID", "" + taxon.getId());
li.setData("node", taxon);
children.add(li);
}
}
});
container.add(
new HTML("Children currently in " + currentNode.getFullName() + ":"), new RowData(1d, 25));
container.add(children, new RowData(1d, 1d));
return container;
}