Hi David, Just wanted to confirm that I had success with the patch that you provided. Thanks again!
Best, Adam On Monday, October 23, 2017 at 4:35:20 PM UTC-5, David Shteynberg wrote: > > Hi Adam, > > Thanks for submitting the bug report. I have traced it to a problem with > iProphet processing small files. I have corrected the issue and have a > patch here: > https://www.dropbox.com/s/mq9yv5a4ew9umhe/InterProphetParser.exe?dl=0 > > Please replace your existing copy in C:\TPP\bin\InterProphetParser.exe > with the one from my patch and try again. > > Cheers, > -David > > On Mon, Oct 23, 2017 at 12:51 PM, Adam R <[email protected] <javascript:>> > wrote: > >> Hi David, >> >> I have attached a screenshot of the parameters used, and have also >> attached screenshots of the output of the command. I figure there are a few >> abundant peptides that should make it through iProphet... >> >> Best, >> >> Adam >> >> >> >> On Monday, October 23, 2017 at 1:51:08 PM UTC-5, David Shteynberg wrote: >>> >>> I have run the TPP on MSFragger results, including iProphet, before. >>> What parameters did you use for PeptideProphet? What was the output of >>> that command? Is it possible that you don't have any high scoring PSM left >>> after PeptideProphet filtering? >>> >>> Thanks, >>> -David >>> >>> On Mon, Oct 23, 2017 at 11:42 AM, Adam R <[email protected]> wrote: >>> >>>> Hi Everyone, >>>> >>>> I am running into a problem with iProphet when trying to perform >>>> additional validation on PeptideProphet files sourced from MSFragger >>>> pep.xml output. The command fails and >>>> shows the warning "file not found: not created or deleted?" Has anyone >>>> else had this issue before? I would like to be able to use MSFragger >>>> output >>>> files (wide mass search) and feed the resulting output through >>>> PeptideProphet/iProphet/PTMProphet. >>>> >>>> Thanks, >>>> >>>> Adam >>>> >>>> >>>> -- >>>> 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 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 [email protected] <javascript:>. >> To post to this group, send email to [email protected] >> <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 [email protected]. To post to this group, send email to [email protected]. Visit this group at https://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
