Hi Mike, Thanks for getting back to me so quickly. Here's the database: https://we.tl/t-wZsZ3uSq1r
Is version 6 available as a container? I've never managed to install TPP properly on a linux machine ... Alastair On Monday, 21 June 2021 at 17:50:24 UTC+2 [email protected] wrote: > Hi Alastair, > > There is a much newer version of tpp2mzid in our current release > candidates of TPP version 6. I’m hoping that the error messages have been > resolved in this new version. However, I also need the fasta search > database file to run the conversion with the newer tpp2mzid. Could you also > provide a link to that file and I will finish my tests and let you know the > result? > > Thanks, > > Mike > > > > *From:* 'Alastair Skeffington' via spctools-discuss < > [email protected]> > *Sent:* Monday, June 21, 2021 6:45 AM > *To:* spctools-discuss <[email protected]> > *Subject:* [spctools-discuss] tpp2mzid help - 'no peptide evidence found > ...' > > > > I'm at the end of a multi-year odyssey of a project, and I just need to > submit data to PRIDE. > > > > Unfortunately, when I run tpp2mzid for some prot.xml files, I get an error > such as this: > > > > Warning (A), no peptide evidence found for (mod): EENAFVQKIAE from > Br20418.t2 > > > > This only happens for some prot.xml files, but I'm not sure why. The > pep.xml files from which the prot.xml are derived convert fine. > > > > I've put an example here: https://we.tl/t-Z9qNNjDC0k > > > > I was running TPP via the docker > container: digitalproteomes/tpp:version-5.2.0.1 > > > > Here is the stdout in full: > > Reading: HCLC_EhN.prot.xml > > Reading: /data/HCLC_EhN_ipro.pep.xml > > Unknown xx modification: B = 114.535 42.5515 > > Unknown xx modification: J = 113.084 44.0023 > > Unknown xx modification: O = 237.148 80.0613 > > Unknown xx modification: U = 150.954 6.13277 > > Unknown xx modification: X = 111 46.0864 > > Unknown xx modification: Z = 128.551 28.5358 > > Unknown xx modification: B = 114.535 42.5515 > > Unknown xx modification: J = 113.084 44.0023 > > Unknown xx modification: O = 237.148 80.0613 > > Unknown xx modification: U = 150.954 6.13277 > > Unknown xx modification: X = 111 46.0864 > > Unknown xx modification: Z = 128.551 28.5358 > > Unknown xx modification: B = 114.535 42.5515 > > Unknown xx modification: J = 113.084 44.0023 > > Unknown xx modification: O = 237.148 80.0613 > > Unknown xx modification: U = 150.954 6.13277 > > Unknown xx modification: X = 111 46.0864 > > Unknown xx modification: Z = 128.551 28.5358 > > Unknown xx modification: B = 114.535 42.5515 > > Unknown xx modification: J = 113.084 44.0023 > > Unknown xx modification: O = 237.148 80.0613 > > Unknown xx modification: U = 150.954 6.13277 > > Unknown xx modification: X = 111 46.0864 > > Unknown xx modification: Z = 128.551 28.5358 > > Unknown xx modification: B = 114.535 42.5515 > > Unknown xx modification: J = 113.084 44.0023 > > Unknown xx modification: O = 237.148 80.0613 > > Unknown xx modification: U = 150.954 6.13277 > > Unknown xx modification: X = 111 46.0864 > > Unknown xx modification: Z = 128.551 28.5358 > > Unknown xx modification: B = 114.535 42.5515 > > Unknown xx modification: J = 113.084 44.0023 > > Unknown xx modification: O = 237.148 80.0613 > > Unknown xx modification: U = 150.954 6.13277 > > Unknown xx modification: X = 111 46.0864 > > Unknown xx modification: Z = 128.551 28.5358 > > Unknown xx modification: B = 114.535 42.5515 > > Unknown xx modification: J = 113.084 44.0023 > > Unknown xx modification: O = 237.148 80.0613 > > Unknown xx modification: U = 150.954 6.13277 > > Unknown xx modification: X = 111 46.0864 > > Unknown xx modification: Z = 128.551 28.5358 > > Unknown xx modification: B = 114.535 42.5515 > > Unknown xx modification: J = 113.084 44.0023 > > Unknown xx modification: O = 237.148 80.0613 > > Unknown xx modification: U = 150.954 6.13277 > > Unknown xx modification: X = 111 46.0864 > > Unknown xx modification: Z = 128.551 28.5358 > > 17648 psms read. > > Warning (A), no peptide evidence found for (mod): EENAFVQKIAE from > Br20418.t2 > > > > Help would be very much appreciated! > > Thanks, > > Alastair > > -- > 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 view this discussion on the web visit > https://groups.google.com/d/msgid/spctools-discuss/f3791dbe-d3d4-43cf-aeda-65792741656fn%40googlegroups.com > > <https://groups.google.com/d/msgid/spctools-discuss/f3791dbe-d3d4-43cf-aeda-65792741656fn%40googlegroups.com?utm_medium=email&utm_source=footer> > . > -- 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 view this discussion on the web visit https://groups.google.com/d/msgid/spctools-discuss/15675077-97af-476e-b471-d6315c5ec078n%40googlegroups.com.
