Dear David, Thanks! Indeed, one of the files was incomplete. Now it works!
Best, Etienne On Fri, Oct 24, 2014 at 5:23 PM, David Shteynberg < david.shteynb...@systemsbiology.org> wrote: > At least one of the input files pepxml is incomplete. Check the file > sizes. Which version are you on? > > -David > On Oct 24, 2014 4:37 AM, "Etienne Caron" <etica...@gmail.com> wrote: > >> Dear Brian, >> >> I'm a postdoc in Ruedi Aeberold's group. I have the exact same problem as >> posted by Andreas in 2009. >> Here is the error message I get when I run xinteract from comet search >> results: >> *unable to read pepxml file: error parsing pepxml file: XML parsing >> error: mismatched tag, at xml file line 10931001, column 2* >> >> Do you know how I can fix this problem? >> >> Thanks in advance for your help. >> Best regards, >> Etienne >> >> >> >> On Friday, July 10, 2009 4:25:05 PM UTC+2, Brian Pratt wrote: >>> >>> Perhaps you could upload the .dat file to ftp://insilicos.serveftp.net/ >>> pub >>> and I can investigate. Zip it up with the database you used, and the >>> mzXML >>> file (so, everything needed to run xinteract). >>> >>> Brian >>> >>> -----Original Message----- >>> From: spctools...@googlegroups.com >>> [mailto:spctools...@googlegroups.com] On Behalf Of andreas quandt >>> Sent: Friday, July 10, 2009 12:52 AM >>> To: spctools...@googlegroups.com >>> Subject: [spctools-discuss] Re: parsing error for pepXML from mascot >>> result >>> >>> >>> hey brian, >>> >>> its 4.2.1 in that case ;-) >>> >>> >>> Brian Pratt wrote: >>> > What version of the software are you using? >>> > >>> > Brian >>> > >>> > -----Original Message----- >>> > From: spctools...@googlegroups.com >>> > [mailto:spctools...@googlegroups.com] On Behalf Of andreas quandt >>> > Sent: Thursday, July 09, 2009 5:50 AM >>> > To: spctools...@googlegroups.com >>> > Subject: [spctools-discuss] parsing error for pepXML from mascot >>> result >>> > >>> > >>> > dear list, >>> > >>> > i analyzed a few samples with mascot and converted the dat file >>> > successfully to pepXML (only error: scan number cannot be found). >>> > afterwards i was running xinteract on all created pep.xml files >>> > (arguments: l -dDECOY_ -OAlIwp). >>> > this was also successful but when i want to display the results, i get >>> > an error message: >>> > >>> > unable to read pepxml file: error parsing pepxml file: XML parsing >>> > error: mismatched tag, at xml file line 1048198, column 2 >>> > >>> > when looking at the file, the line contains following tag: >>> </search_hit>. >>> > the same happens when using iprophet. here the error message is the >>> same >>> > and when jumping to the indicated line, the same tag appears. >>> > >>> > does anyone of you know what's going wrong and/or know how to fix >>> this? >>> > >>> > many thanks in advance, >>> > andreas >>> > >>> > >>> > >>> > >>> > > >>> > >>> >>> >>> >>> >>> -- >> 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 spctools-discuss+unsubscr...@googlegroups.com. >> To post to this group, send email to spctools-discuss@googlegroups.com. >> Visit this group at http://groups.google.com/group/spctools-discuss. >> For more options, visit https://groups.google.com/d/optout. >> > -- > 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/o0hqLQMrjyM/unsubscribe > . > To unsubscribe from this group and all its topics, send an email to > spctools-discuss+unsubscr...@googlegroups.com. > To post to this group, send email to spctools-discuss@googlegroups.com. > Visit this group at http://groups.google.com/group/spctools-discuss. > For more options, visit https://groups.google.com/d/optout. > -- 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 spctools-discuss+unsubscr...@googlegroups.com. To post to this group, send email to spctools-discuss@googlegroups.com. Visit this group at http://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
