Input file (MS-GF+ parameter '-s') [mzML,mzXML,mgf,ms2]Protein sequence database (FASTA file; MS-GF+ parameter '-d'). Non-existing relative filenames are looked up via 'OpenMS.ini:id_db_dir'. [FASTA]Output file [idXML]Alternative output file (MS-GF+ parameter '-o')#br#Either 'out' or 'mzid_out' are required. They can be used together. [mzid]The text sent to standard out during the execution of MSGFPlusAdapter.The text sent to standard error during the execution of MSGFPlusAdapter. (If it appears in gray, it's the output of a previously failing run which is preserved for your trouble shooting.)