It is hard to tell without seeing the rest of the program's output, but my guess is you likely have no results with probability > 0.05 in this dataset. You can try rerunning with minimum probability of 0 to retain all input spectra after probability estimation.
-David On Tue, Apr 26, 2011 at 12:13 AM, zxw <[email protected]> wrote: > > I have successfully converted my .raw (Agilent ) into .mxXML, did a > database search with sequent and converted the results to .pep.xml. I > can even view the pepxml on the web interface. However, every time > when I try to proceed to the analysis stage, the command will fail > with an "Unknown error". A system error with PepXMLViewer.cgi pops out > and states it has encountered an error and needs to be closed. As the > following, > "0x004661bf" command reference "0x00000000" memory. The memory could > not be "read". > > This is because, I failed to open the pepxml file using > PepXMLViewer.cgi. > > This is the TPP command: > > Command 1 > run_in c:/Inetpub/wwwroot/ISB/data/swu; c:\Inetpub\tpp-bin\xinteract - > Ninteract.prot.xml -p0.05 -l7 -Oi -i -X-m1.0-c5-p1 c:/Inetpub/wwwroot/ > ISB/data/swu/SWU1.pep.xml > -------------------------------------------------------------------------------- > > > c:\Inetpub\tpp-bin\xinteract (TPP v4.4 VUVUZELA rev 1, Build > 201010121551 (MinGW)) > naming output file interact-interact.prot.xml.pep.xml > > running: "C:/Inetpub/tpp-bin/InteractParser "interact- > interact.prot.xml.pep.xml" "c:/Inetpub/wwwroot/ISB/data/swu/ > SWU1.pep.xml" -L"7"" > file 1: c:/Inetpub/wwwroot/ISB/data/swu/SWU1.pep.xml > processed altogether 266 results > > > results written to file c:/Inetpub/wwwroot/ISB/data/swu/interact- > interact.prot.xml.pep.xml > > direct your browser to > http://localhost/ISB/data/swu/interact-interact.prot.xml.pep.shtml > > > > command completed in 1 sec > > running: "C:/Inetpub/tpp-bin/PeptideProphetParser "interact- > interact.prot.xml.pep.xml" MINPROB=0.05 ICAT" > (SEQUEST) (icat) > init with SEQUEST trypsin > > > -------------------------------------------------------------------------------- > ...skipping 19 lines of output... > -------------------------------------------------------------------------------- > > > command completed in 0 sec > > running: "C:/Inetpub/tpp-bin/DatabaseParser "interact- > interact.prot.xml.pep.xml"" > command completed in 1 sec > > running: "C:/Inetpub/tpp-bin/RefreshParser "interact- > interact.prot.xml.pep.xml" "C:\Inetpub\wwwroot\ISB\data\swu\dbase > \Bombyx_mori_0908.fasta"" > - Searching the tree... > - Linking duplicate entries... - Printing results... > > - Building Commentz-Walter keyword tree...command completed in 2 > sec > > running: "c:/Inetpub/wwwroot/../tpp-bin/PepXMLViewer.cgi -I c:/Inetpub/ > wwwroot/ISB/data/swu/interact-interact.prot.xml.pep.xml" > > command "c:/Inetpub/wwwroot/../tpp-bin/PepXMLViewer.cgi -I c:/Inetpub/ > wwwroot/ISB/data/swu/interact-interact.prot.xml.pep.xml" failed: > Unknown error > > command "c:/Inetpub/wwwroot/../tpp-bin/PepXMLViewer.cgi -I c:/Inetpub/ > wwwroot/ISB/data/swu/interact-interact.prot.xml.pep.xml" exited with > non-zero exit code: -1073741819 > QUIT - the job is incomplete > > command "c:\Inetpub\tpp-bin\xinteract -Ninteract.prot.xml -p0.05 -l7 - > Oi -i -X-m1.0-c5-p1 c:/Inetpub/wwwroot/ISB/data/swu/SWU1.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.
