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] <javascript:>> 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] <javascript:>> 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] <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.
