Hi guys,

I downloaded TPP v4.3 JETSTREAM rev 1, Build 200909091257 (MinGW) and
tried to use the peptideprophet function to analyze my mascot result.
Since I failed converting pepXML file using TPP, I directly used the
pepXML given by Mascot. However, it was still no luck. Here is the
error message I got:
//
command completed in 2 sec

running: "C:/Inetpub/tpp-bin/PeptideProphetParser "interact.pep.xml"
MINPROB=0.05"
 (MASCOT)
error: -1.0 homology score

command "C:/Inetpub/tpp-bin/PeptideProphetParser "interact.pep.xml"
MINPROB=0.05" failed: Operation not permitted

command "C:/Inetpub/tpp-bin/PeptideProphetParser "interact.pep.xml"
MINPROB=0.05" exited with non-zero exit code: 1
QUIT - the job is incomplete

command "c:\Inetpub\tpp-bin\xinteract -Ninteract.pep.xml -p0.05 -l5 -O
c:/Inetpub/wwwroot/ISB/data/F012543.pep.xml" failed: Operation not
permitted

Command FAILED
//

So I was wondering if anyone can help me to deal with this situation.
Thanks a lot.

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