Hi Nick, Sorry for disturbing again. As advised, I tried to launch separately make_average_volume and make_average_surface. Even with the --no-aseg option with make_average_volume I got the "cannot allocate memory" error. And with the make_average_surface I got the "license error" in the middle of one subject processing... Any idea?
Thank you very much, Marie On 28 mai 10, at 21:37, Nick Schmansky wrote: > try adding --no-aseg to the command line. that out-of-memory error > seems to originate with creation of the average aseg.mgz file > (hopefully > you wont need it for your subject set, typically you dont need > aseg.mgz > since aseg stats are usually gathered from a set of aseg.stats files, > not from an average aseg.mgz). > > doug: maybe we should make --no-aseg the default? > > n. > > > On Fri, 2010-05-28 at 21:31 +0200, Marie Schaer wrote: >> Hello everybody, >> >> I have a problem running make_average_subject for a large number of >> subjects (>400) on a Mac Intel. I tried with different Freesurfer >> versions (all the log outputs are attached). Using the freesurfer >> version 4.3 and 4.4 the make_average_subject script always stop at >> the >> 297th subject with the error "Cannot allocate memory". I already >> tried >> to uncomment the line "limit descriptors unlimited" or to set it to >> various values, as proposed in the mailing list, but without success >> (it always stop at the 297th subject). Then I tried with the >> Freesurfer version 4.5 (therefore I had to recompute the >> lh.inflated.H >> and lh.inflated.K which are not automatically produced in previous >> versions), but with the 4.5 version I got a strange "license error" >> message in the middle of the script (and my licence is certainly fine >> as I can run any other script without problems). >> >> Does anyone have an idea? Many thanks in advance for your precious >> help, >> >> Marie >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > The information in this e-mail is intended only for the person to > whom it is > addressed. If you believe this e-mail was sent to you in error and > the e-mail > contains patient information, please contact the Partners Compliance > HelpLine at > http://www.partners.org/complianceline . If the e-mail was sent to > you in error > but does not contain patient information, please contact the sender > and properly > dispose of the e-mail. > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
