@SuppressWarnings("unchecked")
@Override
public void display(HttpServletRequest request, ReportObject reportObject) {
// get the gene/protein in question from the request
InterMineObject object = reportObject.getObject();
// wrapper for the result so we can say what type it is
HashMap<String, Object> result = new HashMap();
// API connection
HttpSession session = request.getSession();
final InterMineAPI im = SessionMethods.getInterMineAPI(session);
Model model = im.getModel();
PathQuery query = new PathQuery(model);
// dealing with genes...
if (object instanceof Gene) {
// cast me Gene
Gene gene = (Gene) object;
String geneID = String.valueOf(gene.getId());
query = geneCommentsQuery(geneID, query);
Profile profile = SessionMethods.getProfile(session);
PathQueryExecutor executor = im.getPathQueryExecutor(profile);
ExportResultsIterator values;
try {
values = executor.execute(query);
} catch (ObjectStoreException e) {
throw new RuntimeException(e);
}
result.put("gene", geneComments2(values));
// result.put("gene", geneComments(gene));
} else if (object instanceof Protein) {
// cast me Protein
Protein protein = (Protein) object;
String proteinID = String.valueOf(protein.getId());
query = proteinCommentsQuery(proteinID, query);
Profile profile = SessionMethods.getProfile(session);
PathQueryExecutor executor = im.getPathQueryExecutor(profile);
ExportResultsIterator values;
try {
values = executor.execute(query);
} catch (ObjectStoreException e) {
throw new RuntimeException(e);
}
result.put("protein", proteinComments2(values));
// result.put("protein", proteinComments(protein));
} else {
// big fat fail
}
request.setAttribute("response", result);
}
