You likely have no good hits in this dataset so the program assigns 0 probability. If you apply a probability filter of 0 instead of 0.05 (default) you will see all the spectra and the probability in the pepXML.
-David On Thu, Jan 20, 2011 at 11:03 PM, furukie <efur...@etc.a-star.edu.sg> wrote: > Hi Brian, > > the xinteract errors were always the same; > >> run_in c:/Inetpub/wwwroot/ISB/data/Test; c:\Inetpub\tpp-bin\xinteract >> -Ninteract.pep.xml -p0.05 -l7 -O c:/Inetpub/wwwroot/ISB/data/Test/ >> PHHUP00416G00336GL03B01Mix.tandem.pep.xml >> >> c:\Inetpub\tpp-bin\xinteract (TPP v4.4 VUVUZELA rev 1, Build >> 201010121551 (MinGW)) >> >> running: "C:/Inetpub/tpp-bin/InteractParser "interact.pep.xml" "c:/ >> Inetpub/wwwroot/ISB/data/Test/ >> PHHUP00416G00336GL03B01Mix.tandem.pep.xml" -L"7"" >> file 1: c:/Inetpub/wwwroot/ISB/data/Test/ >> PHHUP00416G00336GL03B01Mix.tandem.pep.xml >> processed altogether 1264 results >> >> results written to file c:/Inetpub/wwwroot/ISB/data/Test/ >> interact.pep.xml >> >> direct your browser to http://localhost/ISB/data/Test/interact.pep.shtml >> >> command completed in 0 sec >> >> running: "C:/Inetpub/tpp-bin/PeptideProphetParser "interact.pep.xml" >> MINPROB=0.05" >> (X! Tandem (k-score)) >> init with X! Tandem (k-score) trypsin >> MS Instrument info: Manufacturer: Waters, Model: q-tof micro, >> Ionization: ESI, Analyzer: TOFMS, Detector: unknown >> >> ...skipping 20 lines of output... >> >> => Total of 0 hits. >> command completed in 0 sec >> >> running: "C:/Inetpub/tpp-bin/DatabaseParser "interact.pep.xml"" >> command completed in 0 sec >> >> running: "C:/Inetpub/tpp-bin/RefreshParser "interact.pep.xml" "c:/ >> Inetpub/wwwroot/ISB/data/dbase/ipi.HUMAN.v3.62mod.fasta"" >> - Searching the tree... >> - Linking duplicate entries... - Printing results... >> >> - Building Commentz-Walter keyword tree...command completed in 3 >> sec >> >> running: "C:/Inetpub/wwwroot/../tpp-bin/PepXMLViewer.cgi -I c:/Inetpub/ >> wwwroot/ISB/data/Test/interact.pep.xml" >> >> command "C:/Inetpub/wwwroot/../tpp-bin/PepXMLViewer.cgi -I c:/Inetpub/ >> wwwroot/ISB/data/Test/interact.pep.xml" failed: Unknown error >> >> command "C:/Inetpub/wwwroot/../tpp-bin/PepXMLViewer.cgi -I c:/Inetpub/ >> wwwroot/ISB/data/Test/interact.pep.xml" exited with non-zero exit >> code: -1073741819 >> QUIT - the job is incomplete >> >> command "c:\Inetpub\tpp-bin\xinteract -Ninteract.pep.xml -p0.05 -l7 -O >> c:/Inetpub/wwwroot/ISB/data/Test/ >> PHHUP00416G00336GL03B01Mix.tandem.pep.xml" failed: Unknown error >> >> Command FAILED > > > I am unable to tell where the problem lies here, too. Let me know what > you think. > > Thank you! > > -Eiko > > -- > You received this message because you are subscribed to the Google Groups > "spctools-discuss" group. > To post to this group, send email to spctools-discuss@googlegroups.com. > To unsubscribe from this group, send email to > spctools-discuss+unsubscr...@googlegroups.com. > 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 spctools-discuss@googlegroups.com. To unsubscribe from this group, send email to spctools-discuss+unsubscr...@googlegroups.com. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en.
