public List<PeptideSearchResult> parseMascotPeptideSearchResultsMzidentMLFormat(
File resultsFile) throws MascotParsingException {
MzidReader reader = new MzidReader(resultsFile);
MzIdentMLHandler mzIdentMLHandler = new MzIdentMLHandler(reader);
reader.pushHandler(mzIdentMLHandler);
return reader.run();
}
public List<PeptideSearchResult> sortResultsByChromosome(
List<PeptideSearchResult> searchResult,
ProteinToOLNMap proteinToOLNMap, Genome genome) {