I am sorry but I am really very new to Proteomics and I am not able to figure out the reason for error.
On Tue, Aug 13, 2013 at 2:56 PM, David Shteynberg < [email protected]> wrote: > Any reason you would see this other than Tandem search failed to generate > results? > > Parsing search results "SP062512_062912_IP0201_AX01_23to24 (X! Tandem > (k-score))"... > => Total of 0 hits. > => Total of 0 decoy hits. > => Total of 0 excluded hits. > > > On Tue, Aug 13, 2013 at 11:41 AM, Rishika Bisaria <[email protected] > > wrote: > >> Hi, >> Thank you for the reply. >> Actually I want to follow this pipeline: >> >> Tandem->peptideprophet->q3new->proteinprophet->Q3proteinRatioParser. >> >> And also when I am using Xinteract , I am getting the below error: >> >> running: "C:/Inetpub/tpp-bin/ProphetModels.pl -i interact.iproph.pep.xml" >> Analyzing interact.iproph.pep.xml ... >> Reading NSS model ... >> Reading NRS model ... >> Reading NSE model ... >> Reading NSI model ... >> Reading NSM model ... >> Reading NSP model ... >> Parsing search results "SP062512_062912_IP0201_AX01_23to24 (X! Tandem >> (k-score))"... >> => Total of 0 hits. >> => Total of 0 decoy hits. >> => Total of 0 excluded hits. >> command completed in 1 sec >> >> running: "c:/Inetpub/wwwroot/../tpp-bin/PepXMLViewer.cgi -I >> c:/xtandem/interact.iproph.pep.xml" >> >> command "c:/Inetpub/wwwroot/../tpp-bin/PepXMLViewer.cgi -I >> c:/xtandem/interact.iproph.pep.xml" failed: Unknown error >> >> command "c:/Inetpub/wwwroot/../tpp-bin/PepXMLViewer.cgi -I >> c:/xtandem/interact.iproph.pep.xml" exited with non-zero exit code: >> -1073741819 >> QUIT - the job is incomplete >> >> >> >> >> >> On Tue, Aug 13, 2013 at 2:28 PM, David Shteynberg < >> [email protected]> wrote: >> >>> You pipeline is missing the InteractParser step. Once you have a >>> pep.xml file from Tandem you can run "xinteract -ip -p0 "on it to generate >>> InteractParser->PeptideProphet->iProphet->ProteinProphet pipeline results. >>> >>> -David >>> >>> >>> On Tue, Aug 13, 2013 at 10:16 AM, Rishika Bisaria < >>> [email protected]> wrote: >>> >>>> Hi, >>>> I am able to run successfully the TPP pipeline on one of the mzXML >>>> file.But on using TPP on other mzXML file , ProteinProphet is throwing >>>> error stating that did you forgot to run PeptideProphet. >>>> I have crossed checked all the parameters , they are correct.I am using >>>> the latest version of TPP on windows and running it using commandline. >>>> >>>> 1.tandem input.xml >>>> 2.Tandem2XML output.2013_07_24_13_24_28.t.xml >>>> output.2013_07_24_13_24_28.pep.xml >>>> 3.PeptideProphetParser output.2013_07_24_13_24_28.pep.xml MINPROB=0.2 >>>> 4.ProteinProphet output.2013_07_24_13_24_28.pep.xml >>>> c:\Inetpub\wwwroot\out1.prot.xml >>>> >>>> **** >>>> >>>> P.S. Everytime I am changing the parameters in input.xml file.I am >>>> using k-score function. >>>> >>>> >>>> Thanks, >>>> Rishika >>>> >>>> -- >>>> 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 a topic in the >>> Google Groups "spctools-discuss" group. >>> To unsubscribe from this topic, visit >>> https://groups.google.com/d/topic/spctools-discuss/W_HCVBI82aM/unsubscribe >>> . >>> To unsubscribe from this group and all its topics, 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. >> >> >> > > -- > You received this message because you are subscribed to a topic in the > Google Groups "spctools-discuss" group. > To unsubscribe from this topic, visit > https://groups.google.com/d/topic/spctools-discuss/W_HCVBI82aM/unsubscribe > . > To unsubscribe from this group and all its topics, 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. 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