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Juergen--Have you had successful resolution to this problem? Nick--I'm attempting to average 175 subjects, but make_average_volume returns the same error as Juergen reports. > Allocing output > MRIalloc(256,256,256): could not allocate 262144 bytes for 15547th slice I'm running freesurfer-Linux-rh9-stable-pub-v4.0.1 on SUSE Linux 9.3 2.6.11.4-21.17-smp x86_64, with a pair of Pentium 3.20 GHz processors, 4 GB of physical memory and 8 GB of swap memory. My limits are also quite liberal. > cputime unlimited > filesize unlimited > datasize unlimited > stacksize unlimited > coredumpsize 0 kbytes > memoryuse unlimited > vmemoryuse unlimited > descriptors 1024 > memorylocked 32 kbytes > maxproc 28660 I've tried to also use the alternative script posted by Doug Greve (http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg06641.html). That also returns the same error. Any suggestions? Many thanks, --------- Jim Porter Graduate Student Clinical Science & Psychopathology Research University of Minnesota Nick Schmansky wrote: Juergen, Edit the 'make_average_subject' script removing (or commenting-out) the line 'limit descriptors unlimited'. You may have to do the same for 'make_average_surface' and 'make_average_volume'. Although in v4.0, these should already be commented-out. Nick On Mon, 2008-01-28 at 16:29 +0100, Juergen Haenggi wrote:Dear FS experts I tried to run make_average_subject in the past with 92 subjects and got the following error: Cannot allocate memory. This is now on the to-do list of the FS website. Then I bought some additional RAM and changed from OS X tiger to leopard. Now I tried it again and get this error: [Macintosh-3:/Applications/freesurfer/subjects] juergenhaenggi% limit descriptors 4096 [Macintosh-3:/Applications/freesurfer/subjects] juergenhaenggi% limit cputime unlimited filesize unlimited datasize 6144 kbytes stacksize 8192 kbytes coredumpsize 0 kbytes memoryuse unlimited descriptors 4096 memorylocked unlimited maxproc 266 [Macintosh-3:/Applications/freesurfer/subjects] juergenhaenggi% make_average_subject --subjects SNPs_Vp* limit: descriptors: Can't remove limit (Invalid argument) [Macintosh-3:/Applications/freesurfer/subjects] juergenhaenggi% I set the descriptor limit to 4096, but the make_average_subject command will not start anymore. Any idea what is wrong here? Thanks in advance Best regards Juergen ----------------------------------------------------------- Juergen Haenggi Ph.D. (Dr. des.) Division of Neuropsychology Institute of Psychology University of Zurich Binzmuehlestrasse 14, PO Box 25 8050 Zurich, Switzerland 0041 44 635 73 97 (phone office) 0041 76 445 86 84 (phone mobile) 0041 44 635 74 09 (fax office) BIN 4.D.04 (office room number) [EMAIL PROTECTED] (email) http://www.psychologie.uzh.ch/neuropsy/ (website) http://www.juergenhaenggi.ch (private website) ----------------------------------------------------------- _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer |
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