private void mergeTables(
final CyTable source, final CyTable target, final Class<? extends CyIdentifiable> type) {
CyColumn sourceKey = source.getPrimaryKey();
CyColumn targetKey = target.getPrimaryKey();
String keyName = sourceKey.getName();
// Make sure keys match
if (keyName.equals(targetKey.getName())) {
// Merge columns first, because even if the source table has no rows to merge,
// the columns have to be restored
mergeColumns(keyName, source, target);
for (CyRow sourceRow : source.getAllRows()) {
if (cancelled) return;
Long key = sourceRow.get(keyName, Long.class);
CyIdentifiable entry = cache.getObjectById(key, type);
Long mappedKey = entry != null ? entry.getSUID() : null;
if (mappedKey == null) mappedKey = key;
CyRow targetRow = target.getRow(mappedKey);
mergeRow(keyName, sourceRow, targetRow);
}
}
}
@Override
public boolean handleIt(
final CyIdentifiable to,
final CyColumn toColumn,
final Map<CyIdentifiable, CyColumn> mapFromGOFromAttr) {
if (to == null || toColumn == null || mapFromGOFromAttr == null) {
throw new java.lang.NullPointerException("All parameters should not be null.");
}
final CyTable table = toColumn.getTable();
final CyRow row = table.getRow(to.getSUID());
final ColumnType type = ColumnType.getType(toColumn);
if (type == ColumnType.STRING) {
final String toValue = row.get(toColumn.getName(), String.class);
final Set<String> values = new TreeSet<String>();
values.add(toValue);
for (Map.Entry<CyIdentifiable, CyColumn> entry : mapFromGOFromAttr.entrySet()) {
final CyIdentifiable from = entry.getKey();
final CyColumn fromColumn = entry.getValue();
final CyRow fromRow = fromColumn.getTable().getRow(from.getSUID());
// TODO figure out which network to be using
String fromValue = fromRow.get(fromColumn.getName(), String.class);
if (fromValue != null) {
values.add(fromValue.toString());
}
}
StringBuilder str = new StringBuilder();
for (String v : values) {
str.append(v + ";");
}
str.deleteCharAt(str.length() - 1);
row.set(toColumn.getName(), str.toString());
return true;
}
// FIXME: how about Integer, Double, Boolean?
return false;
}
protected final String getGraphObject(final CyNetwork network, final CyIdentifiable obj) {
final CyRow row = network.getRow(obj);
try {
return this.serializer.serializeGraphObject(obj, row);
} catch (IOException e) {
throw getError(
"Could not serialize graph object with SUID: " + obj.getSUID(),
e,
Response.Status.INTERNAL_SERVER_ERROR);
}
}