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.
