Hi , Thank you for the reply.I tried converting the output of XTandem using TPP pipeline but it is not accepting the file.Is there any other conversion method by which I can convert the same into pepxml.
Regards, Rishika On Mon, Jul 22, 2013 at 3:06 PM, David Shteynberg < [email protected]> wrote: > Tandem's native xml format is different from pepXML format needed by the > TPP. Please convert your tandem.xml files to pepXML first, this should > happen automatically if you run the search through the TPP. Otherwise you > can use the Analysis Pipeline->pepXML tab to convert. > > -David > > > On Mon, Jul 22, 2013 at 11:24 AM, Rishika Bisaria <[email protected] > > wrote: > >> Hi, >> I have successfully obtained output xml file from XTandem and when Ia m >> trying to use that file as an input for PeptideProphet I am getting an >> error did not find closing tag "</msms_pipeline_analysis>". >> >> >> C:\Users\ribisari\Desktop\Downloads>PeptideProphetParser >> C:\Users\ribisari\Desktop\Software\tandem-win-13-06-15-1\tandem-win-13-06-15-1\bin\output.2013_07_20_15_59_46.t.xml >> MS Instrument info: Manufacturer: UNKNOWN, Model: UNKNOWN, Ionization: >> UNKNOWN, Analyzer: UNKNOWN, Detector: UNKNOWN >> >> Error: file update failed (did not find closing tag >> "</msms_pipeline_analysis>"), check file >> C:\Users\ribisari\Desktop\Software\tandem-win-13-06-15-1\tandem-win-13-06-15-1\bin\output.2013_07_20_15_59_46.t.xml.tmp.a >> 12628 for completeness >> error: no peptideprophet data written to file >> C:\Users\ribisari\Desktop\Software\tandem-win-13-06-15-1\tandem-win-13-06-15-1\bin\output.2013_07_20_15_59_46.t.xml >> >> Kindly let me know what should I do to proceed ahead. >> >> Regards, >> 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/4MIq-sKq9_E/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.
