Hi Christian, The problem is here:
WARNING: Inspect only support semi-parametric PeptideProphet modelling, which relies on a DECOY search. You need to include Decoy sequences (with a decoy tag) in the protein database you are searching and specify this to PeptideProphet. If you are using Petunia there are tool that can help you generate and append decoys to your database. -David On Tue, Feb 9, 2010 at 11:54 AM, Cristian <[email protected]> wrote: > Dear All, > > I am trying to analyze InSpecT results on pepxml format with TPP. I > copied below the error message that TPP generates. Any help will be > greatly appreciated. > > Cheers, > Cristian > > > > run_in c:/Inetpub/wwwroot/ISB/data/try; c:\Inetpub\tpp-bin\xinteract > -Ninteract0209.pep.xml -p0.05 -l7 -O c:/Inetpub/wwwroot/ISB/data/try/ > writeto.pep.xml > -------------------------------------------------------------------------------- > > > c:\Inetpub\tpp-bin\xinteract (TPP v4.3 JETSTREAM rev 1, Build > 200909091257 (MinGW)) > > running: "C:/Inetpub/tpp-bin/InteractParser "interact0209.pep.xml" "c:/ > Inetpub/wwwroot/ISB/data/try/writeto.pep.xml" -L"7"" > file 1: c:/Inetpub/wwwroot/ISB/data/try/writeto.pep.xml > processed altogether 10897 results > > > results written to file c:/Inetpub/wwwroot/ISB/data/try/ > interact0209.pep.xml > > direct your browser to http://localhost/ISB/data/try/interact0209.pep.shtml > > > > command completed in 8 sec > > running: "C:/Inetpub/tpp-bin/PeptideProphetParser > "interact0209.pep.xml" MINPROB=0.05" > (InsPecT) > WARNING!! The discriminant function for Inspect is not yet complete. > It is presented here to help facilitate trial and discussion. > Reliance on this code for publishable scientific results is not > recommended. > WARNING: Inspect only support semi-parametric PeptideProphet > modelling, which relies on a DECOY search. > WARNING: Inspect only support semi-parametric PeptideProphet > modelling, which relies on a DECOY search. > WARNING: Inspect only support semi-parametric PeptideProphet > modelling, which relies on a DECOY search. > WARNING: Inspect only support semi-parametric PeptideProphet > modelling, which relies on a DECOY search. > WARNING: Inspect only support semi-parametric PeptideProphet > modelling, which relies on a DECOY search. > WARNING: Inspect only support semi-parametric PeptideProphet > modelling, which relies on a DECOY search. > WARNING: Inspect only support semi-parametric PeptideProphet > modelling, which relies on a DECOY search. > init with InsPecT None > MS Instrument info: Manufacturer: UNKNOWN, Model: ESI-ION-TRAP, > Ionization: UNKNOWN, Analyzer: UNKNOWN, Detector: UNKNOWN > > PeptideProphet (TPP v4.3 JETSTREAM rev 1, Build 200909091257 > (MinGW)) akel...@isb > read in 938 1+, 4815 2+, 3088 3+, 0 4+, 0 5+, 0 6+, and 0 7+ spectra. > Initialising statistical models ... > Iterations: .........10.........20 > > command "C:/Inetpub/tpp-bin/PeptideProphetParser > "interact0209.pep.xml" MINPROB=0.05" failed: Unknown error > > command "C:/Inetpub/tpp-bin/PeptideProphetParser > "interact0209.pep.xml" MINPROB=0.05" exited with non-zero exit code: > -1073741819 > QUIT - the job is incomplete > > command "c:\Inetpub\tpp-bin\xinteract -Ninteract0209.pep.xml -p0.05 - > l7 -O c:/Inetpub/wwwroot/ISB/data/try/writeto.pep.xml" failed: Unknown > error > Command FAILED > > -- > 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.
