[FEATURE] ProteinProphetAdapter

TPP PeptideProphet and ProteinProphet adapter. This version is working for XTandemAdapter idXML results. TPP/xinteract program will do the PeptideProphet analysis on the peptideID results and TPP/ProteinProphet will do the protein inference. 
Tests are added into the SEARCHENGINES folder.
 #952 (Will it keep there after this pull request closed?)