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
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