Dear Eric, It's really nice to see your quick reply. I dont understand the reason until now. But the warning disappeared when I change the modifications from residue, potential modification mass 15.994...@m,0.9...@n,0.9...@q to refine, potential modification mass 15.994...@m,0.9...@n,0.9...@q
On Sep 15, 5:17 pm, Eric Deutsch <[email protected]> wrote: > Maybe it's related to the fact that X!Tandem applies a variable Q-17 > modification to N-terminal Qs whether you want it or not. I bet you'll > find that those scan numbers you list yield a PSM with an N-terminal Q. > Maybe Tandem2XML doesn't know what to do about two possible variable mods > on these Qs?? > > > > > -----Original Message----- > > From: [email protected] [mailto:spctools- > > [email protected]] On Behalf Of Rachel > > Sent: Tuesday, September 14, 2010 11:33 PM > > To: spctools-discuss > > Subject: [spctools-discuss] Warnings in Tandem search. > > > Hi, > > > I did TPP tandem search with the following parameters, > > > modification mass 57.021...@c > > potential modification mass 15.994...@m > > potential modification mass 15.994...@m,0.9...@n,0.9...@q > > > However, many warnings popped up when i convert the .tandem file > > to .pep.xml file. > > i.e. > > Tandem2XML.exe ./$x.tandem ./$x.tandem.pep.xml > > WARNING: Multiple variable modifications on Q for scan 11685. > > WARNING: Multiple variable modifications on Q for scan 11257. > > WARNING: Multiple variable modifications on Q for scan 11086. > > WARNING: Multiple variable modifications on Q for scan 11062. > > .... > > .... > > etc. > > > There are 100+ such WARNINGS. > > > I am very grateful if any expert can point it out to me what is the > > problem? > > > -Thanks in advance > > > -- > > You received this message because you are subscribed to the Google > > Groups "spctools-discuss" group. > > To post to this group, send email to [email protected]. > > To unsubscribe from this group, send email to spctools- > > [email protected]. > > For more options, visit this group at > >http://groups.google.com/group/spctools-discuss?hl=en.- Hide quoted text - > > - Show quoted text - -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to [email protected]. To unsubscribe from this group, send email to [email protected]. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en.
