/**
* From the columns of the PagedTable, return a List of the Paths that this exporter will use to
* find sequences to export. The returned Paths are a subset of the prefixes of the column paths.
* eg. if the columns are ("Gene.primaryIdentifier", "Gene.secondaryIdentifier",
* "Gene.proteins.primaryIdentifier") return ("Gene", "Gene.proteins").
*
* @param pt the PagedTable
* @return a list of Paths that have sequence
*/
public static LinkedHashMap<Path, Integer> getExportClassPaths(PagedTable pt) {
LinkedHashMap<Path, Integer> retPaths = new LinkedHashMap<Path, Integer>();
List<Column> columns = pt.getColumns();
for (int index = 0; index < columns.size(); index++) {
Path prefix = columns.get(index).getPath().getPrefix();
ClassDescriptor prefixCD = prefix.getLastClassDescriptor();
Class<? extends FastPathObject> prefixClass = DynamicUtil.getSimpleClass(prefixCD.getType());
// Chromosome is treated as a sequence feature in the model
if (SequenceFeature.class.isAssignableFrom(prefixClass)
&& !Chromosome.class.isAssignableFrom(prefixClass)) {
if (!retPaths.keySet().contains(prefix)) {
retPaths.put(prefix, index);
}
}
}
return retPaths;
}
