public PeptideTerminalAAResult calculateForAnalysis(int analysisId) {
DAOFactory daoFactory = DAOFactory.instance();
MsRunSearchAnalysisDAO rsaDao = daoFactory.getMsRunSearchAnalysisDAO();
List<Integer> runSearchAnalysisIds = rsaDao.getRunSearchAnalysisIdsForAnalysis(analysisId);
PeptideTerminalAAResult result =
calculateForRunSearchAnalysisIds(analysisId, runSearchAnalysisIds);
result.setEnzyme(enzyme);
return result;
}
public PeptideTerminalAAResult calculateForRunSearchAnalysisIds(
int analysisId, List<Integer> runSearchAnalysisIds) {
long s = System.currentTimeMillis();
PeptideTerminalAAResult result = new PeptideTerminalAAResult();
result.setAnalysisId(analysisId);
result.setScoreCutoff(this.scoreCutoff);
result.setScoreType("PERC_PSM_QVAL");
result.setEnzyme(this.enzyme);
for (Integer rsaId : runSearchAnalysisIds) {
PeptideTerminalAAResult rsaResult = calculateForRunSearchAnalysis(analysisId, rsaId);
result.combineWith(rsaResult);
}
long e = System.currentTimeMillis();
log.info("Total time to get results " + TimeUtils.timeElapsedSeconds(s, e) + " seconds");
log.info("Total filtered results: " + result.getTotalResultCount());
result.setEnzyme(enzyme);
return result;
}