Hi Justin,
It seems you have encoutnered a bug in the tutorial Demo / xinteract tool that is not letting you process a file through xinteract if it has already been processed with PeptideProphet and iProphet. I have updated xinteract to work as advertised on the Demo you are following, but I also had to update the instructions in the demo (see http://tools.proteomecenter.org/wiki/index.php?title=TPP_Tutorial_v2#9._Peptide_Quantitation_with_ASAPRatio). Please replace your version of c:\Inetpub\tpp-bin\xinteract.exe with the one I built today that corrects the problem (you can download it here: https://dl.dropboxusercontent.com/u/21286225/xinteract.exe) reread the instructions in the Tutorial and try again. Best wishes, -David On Fri, Oct 4, 2013 at 7:42 AM, <[email protected]> wrote: > Hello, > > I am working through the > tutorial<http://tools.proteomecenter.org/wiki/index.php?title=TPP_Tutorial>and > when I attempt to run ASAPRatio the it ends immediately with an error: > > ERROR: output file created, > c:/Inetpub/wwwroot/ISB/data/demo/interact.pep.xml, appears incomplete. > Please check the input files for completeness > > I used *interact.iproph.pep.xml *generated by iProphet per the > instructions and the file looks like it should as far as I can tell. > > I'm running Windows 7 on an Optiplex 760 and using TPP 4.6.3 > > Any help figuring out what is wrong would be greatly appreciated. > > Justin > > The full output from ASAPRatio is below: > > c:\Inetpub\tpp-bin\xinteract (TPP v4.6 OCCUPY rev 3, Build 201307241109 > (MinGW)) > > > > running: "C:/Inetpub/tpp-bin/InteractParser "interact.pep.xml" > "interact.ipro.pep.xml" -L"7"" > > Skipping file interact.ipro.pep.xml, which already contains peptideprophet > results ... > > processed altogether 0 results > > ERROR: output file created, > c:/Inetpub/wwwroot/ISB/data/demo/interact.pep.xml, appears incomplete. > Please check the input files for completeness. > > INFO: Results written to file: > c:/Inetpub/wwwroot/ISB/data/demo/interact.pep.xml > > command completed in 0 sec > > > > running: "C:/Inetpub/tpp-bin/DatabaseParser "interact.pep.xml"" > > command completed in 0 sec > > > > No single database specified (by -D option or in .pep.xml file). > RefreshParser skipped. > > > > running: "c:/Inetpub/wwwroot/../tpp-bin/PepXMLViewer.cgi -I > c:/Inetpub/wwwroot/ISB/data/demo/interact.pep.xml" > > c:/Inetpub/wwwroot/ISB/data/demo/interact.pep.xml(1) : error 3: XML > Parsing error.no element foundat l:1, c:0 > > > > This application has requested the Runtime to terminate it in an unusual > way. > > Please contact the application's support team for more information. > > > > command "c:/Inetpub/wwwroot/../tpp-bin/PepXMLViewer.cgi -I > c:/Inetpub/wwwroot/ISB/data/demo/interact.pep.xml" failed: Unknown error > > > > command "c:/Inetpub/wwwroot/../tpp-bin/PepXMLViewer.cgi -I > c:/Inetpub/wwwroot/ISB/data/demo/interact.pep.xml" exited with non-zero > exit code: 255 > > QUIT - the job is incomplete > > > > command "c:\Inetpub\tpp-bin\xinteract -Ninteract.pep.xml -p0.05 -l7 -nP > interact.ipro.pep.xml" failed: Unknown error > > -- > You received this message because you are subscribed to the Google Groups > "spctools-discuss" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to [email protected]. > To post to this group, send email to [email protected]. > Visit this group at http://groups.google.com/group/spctools-discuss. > For more options, visit https://groups.google.com/groups/opt_out. > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To unsubscribe from this group and stop receiving emails from it, send an email to [email protected]. To post to this group, send email to [email protected]. Visit this group at http://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/groups/opt_out.
