private PeptideProteinNameSet ProteinListToPPNSet(ArrayList<Protein> proteins) {
Set<String> protNames = new HashSet<String>();
Set<String> pepNames = new HashSet<String>();
for (Protein p : proteins) {
protNames.add(p.getName());
pepNames.addAll(p.getPeptides());
}
PeptideProteinNameSet pps = new PeptideProteinNameSet();
pps.setPeptides(pepNames);
pps.setProteins(protNames);
return pps;
}
private PeptideProteinNameSet getPeptideProteinNameSet() {
PeptideProteinNameSet pps = new PeptideProteinNameSet();
pps.setPeptides(minPeptides.keySet());
pps.setProteins(minProteins.keySet());
return pps;
}