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 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.
