Thank you for the quick reply! For some reason, the params file got switched to .out instead of .pepmxl like you said (I must have forgotten doing this).
This solved the issue, thanks again! Francesca On Thursday, February 2, 2017 at 5:06:37 PM UTC-5, Luis wrote: > > Hello Francesca, > It looks like this is a problem with Comet trying to produce .out files as > output; we will contact the developers to troubleshoot this. > > You may want, however, to produce pepXML output, which is the format used > by TPP (assuming that's your desired workflow) -- please mind the following > parameters in your file and change them accordingly: > > output_pepxmlfile = 0 > output_outfiles = 1 > > Cheers, > --Luis > > > > On Thu, Feb 2, 2017 at 1:24 PM, Francesca Barry <francesc...@gmail.com > <javascript:>> wrote: > >> Hello, >> >> I'm trying to run a Comet search in TPP against a human database. >> Ultimately, I'm trying to run the decoy search, which didn't work. >> >> Since this didn't work, I went back and tried to re-run the forward >> search that I did 3 weeks ago with the exact same .mzML file, the exact >> same .params file, and the exact same fasta sequence as before (which all >> worked previously). Now for some reason this forward/non-decoy search >> doesn't even work and gives the same error as I'm getting when trying to do >> the decoy search (see attached image, which is the error for decoy search, >> but it's the same error either way). >> >> I have also attached the params file that I used 2 weeks ago (which I >> only modified this time by setting the decoy search = 1). >> >> Any help would be appreciated because I don't understand how it no longer >> works with the EXACT same files when it worked 3 weeks ago. >> >> Thank you! >> >> Francesca >> >> -- >> 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-discu...@googlegroups.com <javascript:>. >> To post to this group, send email to spctools...@googlegroups.com >> <javascript:>. >> Visit this group at https://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 https://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
