The main error seems to be that the processing engine is not recognized
running: /usr/local/apps/tpp/bin/PeptideProphetParser 'interact.pep.xml'
(OpenMS/ConsensusID)
error: engine OpenMS/ConsensusID not recognized
which seems to result from the attribute
search_engine=OpenMS/ConsensusID
Hannes, thanks for your reply.
You are right. ConsensusID can process the data at peptide level, and I
have done that successfully. However, consensusID lacks validation tool at
protein level. According to a JPR paper, idXML can be converted to pepXML,
which was subsequently subjected to
