FYI: In the -prep and -path sections I can run a 77 direction DWI on 33 training subjects with 8Gb RAM, Ubuntu 12.04 but it spills over into the swap memory. The -bedp section is not a memory hog at all.
Cheers, Sean On 3/05/13 4:51 PM, "Jürgen Hänggi" <j.haen...@psychologie.uzh.ch> wrote: >Hi Daria > >We had the same problem on Macs, although they had enough memory. A work >around would be to reduce the number of training subjects in the trctrain >folder. When we used 26 instead of 33 training subjects, the error >disappeared. > >Cheers >Jürgen > > > >On [DATE], "Antonenko, Daria" <[ADDRESS]> wrote: > >> Hi Anastasia, >> my first idea was also that something else might disturb the process, >>but i >> replicated the error several times and observed the memory load in the >>system >> monitor without running anything else, seemed not memory-intensive at >>all.. >> I use a 10 b0 + 64dir DTI sequence, 2.3×2.3×2.3 mm3, TR=7500 ms, TE=86 >>ms. The >> preprocessing, dtifit and bedpostx with FSL worked fine. >> >> Daria >> >> ________________________________________ >> Von: Anastasia Yendiki [ayend...@nmr.mgh.harvard.edu] >> Gesendet: Freitag, 26. April 2013 18:38 >> An: Antonenko, Daria >> Cc: freesurfer@nmr.mgh.harvard.edu >> Betreff: Re: AW: [Freesurfer] tracula FS 5.2 >> >> Hi Daria - It shouldn't need more than 4Gb based on some quick tests >>that >> I ran for this particular step where you're getting the memory error. >>What >> are the dimensions of your DWI series? Were you running anything else at >> the same time that was memory-intensive? >> >> a.y >> >> On Thu, 11 Apr 2013, Antonenko, Daria wrote: >> >>> Hi Anastasia, >>> I'm running tracula on linux ubuntu (mint 14) on a lenovo thinkpad >>>edge. it >>> has 8gb ram and 4 CPUs, i think it's a lot.. I did not run tracula >>>before on >>> this computer. >>> >>> Daria >>> >>> --------------------------------------------- >>> Daria Antonenko, Dipl.-Psych. >>> Charité - Universitätsmedizin Berlin >>> NeuroCure Clinical Research Center NCRC >>> AG Flöel >>> Charitéplatz 1, 10117 Berlin >>> Tel.: +49 30 450 560 223 >>> Fax: +49 30 450 539 921 >>> E-Mail: daria.antone...@charite.de >>> >>> >>> -----Ursprüngliche Nachricht----- >>> Von: Anastasia Yendiki [mailto:ayend...@nmr.mgh.harvard.edu] >>> Gesendet: Mittwoch, 10. April 2013 17:03 >>> An: Antonenko, Daria >>> Cc: freesurfer@nmr.mgh.harvard.edu >>> Betreff: Re: [Freesurfer] tracula FS 5.2 >>> >>> >>> Hi Daria - How much memory does your system have? Were you ever able to >>> run trac-all from the 5.1 version on the same system? >>> >>> a.y >>> >>> On Wed, 10 Apr 2013, Antonenko, Daria wrote: >>> >>>> Hi FS experts, >>>> I tried to run Tracula with the new FS 5.2 release and came across >>>>memory >>>> allocation problems in the preprocessing step and would appreciate >>>>some >>>> advice on solving them: >>>> >>>> MRIalloc(218, 182, 182): could not allocate 158704 bytes for 98th >>>>slice >>>> Cannot allocate memory >>>> Linux daria-Think 3.5.0-17-generic #28-Ubuntu SMP Tue Oct 9 19:32:08 >>>>UTC >>>> 2012 i686 i686 i686 GNU/Linux >>>> trac-preproc exited with ERRORS at Tue Apr 9 22:21:43 CEST 2013 >>>> >>>> I attached the log-file. >>>> Let me know if you need further information about my system. >>>> Thank you in advance, Daria >>> >>> >>> The information in this e-mail is intended only for the person to whom >>>it is >>> addressed. 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