External Email - Use Caution
Thanks for the suggestion! But it seems the max memory size was unlimited already. Any more thoughts about this? Best, Haroan
$ ulimit -a
core file size (blocks, -c) 0
data seg size (kbytes, -d) unlimited
scheduling priority (-e) 0
file size (blocks, -f) unlimited
pending signals (-i) 96121
max locked memory (kbytes, -l) 64
*max memory size (kbytes, -m) unlimited* open files (-n) 1024
pipe size (512 bytes, -p) 8
POSIX message queues (bytes, -q) 819200
real-time priority (-r) 0
stack size (kbytes, -s) 8192
cpu time (seconds, -t) unlimited
max user processes (-u) 96121
virtual memory (kbytes, -v) unlimited
file locks (-x) unlimited
On Wed, Dec 19, 2018 at 7:14 PM fsbuild fsbuild@contbay.com wrote:
External Email - Use CautionHello Haoran,
You could try looking at your shell limits and see if the memory size is listed as something other than “unlimited”.
In bash shell,
$ bash $ ulimit -a core file size (blocks, -c) 0 data seg size (kbytes, -d) unlimited scheduling priority (-e) 0 file size (blocks, -f) unlimited pending signals (-i) 256605 max locked memory (kbytes, -l) 64
*max memory size (kbytes, -m) unlimited*open files (-n) 65535 pipe size (512 bytes, -p) 8 POSIX message queues (bytes, -q) 819200 real-time priority (-r) 0 stack size (kbytes, -s) unlimited cpu time (seconds, -t) unlimited max user processes (-u) 256605 virtual memory (kbytes, -v) unlimited file locks (-x) unlimited
If memory does not read as unlimited then,
$ ulimit -m unlimited
- R.
On Dec 19, 2018, at 18:30, Haoran Xu haoran.x@gmail.com wrote:
External Email - Use CautionHello FreeSurfer Developers,
I am using surfreg to map one of my subject "subj001" to "fsaverage_sym" by these commands:
surfreg --s subj001 --t fsaverage_sym --lh surfreg --s subj001 --t fsaverage_sym --lh --xhemi
The first command worked well, however the second did not. It showed error:
"znzTAGskip: tag=1952870258, failed to calloc 1768846336 bytes! Cannot allocate memory"
Searched the archive but without good luck. Any suggestions? Appreciated!
- FreeSurfer version: freesurfer-Linux-centos6_x86_
64-stable-pub-v6.0.0-2beb96c. 2) Platform: UBUNTU 16.04 LTS with 23.5GB memory and 1.4TB available space. (With this, 1.7G should be fine.) 3) uname -a: Linux haoranPC 4.15.0-43-generic #46~16.04.1-Ubuntu SMP Fri Dec 7 13:31:08 UTC 2018 x86_64 x86_64 x86_64 GNU/Linux
Regards, Haoran Xu
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