Dear Doug,
I saw your reply to this question a while ago. I'm
using a mac pro with 16G memory but having the same problem. Do you know
if this is a matlab memory issue (matlab R2009a) or an overall memory
issue of the machine? I'd appreciate if you can give me some helps. (I
have 12 runs, each run has 200 TRs and 20 events, TR=2s)
Thanks very much!
Brown
ps. Here are the commands and error messages:
mkanalysis-sess
-analysis $ANALYSIS -TR 2 -paradigm $PARAFILE -event-related -funcstem
$FUNCSTEM -nconditions 9 -mcextreg -runlistfile $RLF -fsd bold -fir 10
30 -native
selxavg3-sess -s $SUBJECTID -df sessdir -analysis $ANALYSIS -no-con-ok
>>>>
Whitening
Computing whitening matrices
MATLAB(19078,0xb0987000) malloc: *** mmap(size=1382400000) failed (error code=12)
*** error: can't allocate region
*** set a breakpoint in malloc_error_break to debug
??? Out of memory. Type HELP MEMORY for your options.
Error in ==> fast_selxavg3 at 603
Sinv = zeros(ntptot,ntptot,flac0.acfbins);
>> pure virtual method calledOpening log file: /var/root/java.log.19078
Abort
------------------------------------------
ERROR: fast_selxavg3() failed\n
>>>>
I think you might need a bigger computer. A run of that data set will
require almost 1G, and there are places in the code where several data
structures of the same size will need to exist simultaneously, so you
can easily use 2 or 3 or 4 G to process a single run. In theory you
could divide them up into smaller bits as long as you handle the
stimulus schedule files properly.
doug
Schadwinkel, Stefan wrote:
>Hi,
>
>as I tried to show in the posting, I tried it on 3 Machines:
>
>1) Linux, 1 GB memory: out of memory during OLS Residual Pass, then Java crashes
>2) Linux, 2 GB memory: out of memory during Whitening
>3) Mac (Mac OS X 10.5), 4 GB memory: as well: out of memory during Whitening
>
>Thanks a lot & best regards,
>
>Stefan Schadwinkel
--
Po-Jang (Brown) Hsieh
Neuroscience and Behavioral Disorders Program
Duke-NUS Graduate Medical School
8 College Road, Singapore 169857
--
Lab website: Brain & Consciousness Lab