Hi David; Any progress with the new version ?
Thanks On Saturday, March 30, 2019 at 1:58:14 PM UTC-4, Felipe da Veiga Leprevost wrote: > > We are currently working on both environments, I would appreciate if you > could send both versions to us. > > > On Friday, March 29, 2019 at 6:30:02 PM UTC-4, David Shteynberg wrote: >> >> Hi Felipe, >> >> Thanks for sharing your problem with me. I was able to implement a fix >> for this issue and I can provide you with a file to test. Are you running >> this analysis on windows or linux? >> >> Cheers, >> -David >> >> On Tue, Mar 19, 2019 at 12:17 PM David Shteynberg < >> [email protected]> wrote: >> >>> Dear Felipe, >>> >>> Much has changed in PTMProphet, with an emphasis on known PTM >>> localizations. These changes seem to have broken the MASSDIFFMODE of >>> PTMProphet as you have observed. I would be happy to help track down the >>> issue, but I could use your help in providing the repro. Please let me >>> know if you can post your dataset for me to troubleshoot. Meanwhile, >>> please use the older version that has a functional MASSDIFFMODE. >>> >>> Thanks! >>> -David >>> >>> On Tue, Mar 19, 2019 at 10:55 AM Felipe da Veiga Leprevost < >>> [email protected]> wrote: >>> >>>> Hi; >>>> >>>> I'm getting an error when running PTMProphet 5.2.0. using MSFragger >>>> open search results and using the MASSDIFFMODE option. Without the option >>>> the program is able to finish without problems (same file), but when using >>>> MASSIFFMODE the program ends with a segmentation fault, see below: >>>> >>>> > ./PTMProphetParser MASSDIFFMODE VERBOSE interact-01A.pep.xml interact >>>> .mod.pep.xml >>>> >>>> >>>> INFO: Applying PSM specific mass offset and tolerance ... >>>> INFO: Writing file interact.mod.pep.xml ... >>>> >>>> >>>> Creating 1 threads >>>> Wait for threads to finish ... >>>> INFO: Reading file interact-01A.pep.xml ... >>>> INFO: processed 31000/31545 spectrum_queries >>>> INFO: done ... >>>> INFO: Computing EM Models ... >>>> Iterating PTM Model: ....5....10....15....20....25....30....35....40. >>>> ...45....50....55....60....65....70....75....80....85....90....95.... >>>> INFO: done ... >>>> INFO: done ... >>>> >>>> >>>> Creating 1 threads >>>> Wait for threads to finish ... >>>> INFO: Reading file interact-01A.pep.xml ... >>>> Segmentation fault (core dumped) >>>> >>>> Is there any other option that we should add to the run ? >>>> >>>> Thanks >>>> >>>> -- >>>> 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]. 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.
