private SearchResult runGeneManiaAlgorithm()
throws ApplicationException, DataStoreException, NoRelatedGenesInfoException {
RelatedGenesEngineRequestDto request = createRequest();
response = runQuery(request);
EnrichmentEngineRequestDto enrichmentRequest = createEnrichmentRequest(response);
EnrichmentEngineResponseDto enrichmentResponse = computeEnrichment(enrichmentRequest);
SearchResult options =
networkUtils.createSearchOptions(human, request, response, enrichmentResponse, data, genes);
return options;
}
private RelatedGenesEngineResponseDto runQuery(RelatedGenesEngineRequestDto request)
throws DataStoreException {
try {
request.setProgressReporter(NullProgressReporter.instance());
RelatedGenesEngineResponseDto result;
result = mania.findRelated(request);
request.setCombiningMethod(result.getCombiningMethodApplied());
networkUtils.normalizeNetworkWeights(result);
return result;
} catch (ApplicationException e) {
Logger logger = Logger.getLogger(getClass());
logger.error("Unexpected error", e); // $NON-NLS-1$
return null;
}
}