Hi Kinfai, The problem lies in the error message: (mspire: ms-sequest not recognizedspire: ms-sequest)
We have not processed this sort of data yet. If you want to post your file here we can adjust the TPP to deal with these files in the future: http://tools.proteomecenter.org/wiki/index.php?title=TPP:Frequently_Asked_Questions#How_do_I_upload_files_to_the_SPC_tools_team.3F Thanks, -David On Wed, Jun 22, 2011 at 12:00 AM, Kinfai Au <[email protected]> wrote: > After converting SQT file to pep.xml file, I ran the following > command: > > xinteract -Ninteract.pep.xml -p0.05 -l7 -O test5.pep.xml > > Then, it crashed in some step. Here is the error message. I spent days > on it but the pipeline TPP still fails. Could anyone give me some > help? > ################################################################ > > xinteract (TPP v4.4 VUVUZELA rev 1, Build 201106201323 (linux)) > > running: "/home/stow/swtree/stow/TPP-4.4.1/bin/InteractParser > 'interact.pep.xml' 'test5.pep.xml' -L'7'" > file 1: test5.pep.xml > processed altogether 41651 results > > > results written to file /home/kinfai/test5/interact.pep.shtml > > > > command completed in 44 sec > > running: "/home/stow/swtree/stow/TPP-4.4.1/bin/PeptideProphetParser > 'interact.pep.xml' MINPROB=0.05" > )(mspire: ms-sequest > not recognizedspire: ms-sequest > > command "/home/stow/swtree/stow/TPP-4.4.1/bin/PeptideProphetParser > 'interact.pep.xml' MINPROB=0.05" exited with non-zero exit code: 256 > QUIT - the job is incomplete > > -- > You received this message because you are subscribed to the Google Groups > "spctools-discuss" group. > To post to this group, send email to [email protected]. > To unsubscribe from this group, send email to > [email protected]. > For more options, visit this group at > http://groups.google.com/group/spctools-discuss?hl=en. > > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to [email protected]. To unsubscribe from this group, send email to [email protected]. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en.
