Hi,
I am trying to run an fMRI gamma analysis and am running into memory problems. I'm running freesurfer version stable 4.0 on unix through multnomah. The subject directory is located in /space/multnomah/3/users/gow/PROZ06/MRI/PROZ06004. We're running into issues with the selxavg-sess command. While in the /space/multnomah/3/users/gow/PROZ06/StudyDir I ran selxavg3-sess -sf sessid04 -df sesspar -analysis sm-gamma-fwhm5 -overwrite and got a memory error from matlab. Now this worked one time with using just one run, but when I try to analyze all three runs it returned the error and then when I went back and reran just that one run I received the same error. Below is my code. Thanks.
multnomah:jsegawa[91] selxavg3-sess -sf sessid04 -df sesspar -analysis sm-gamma- fwhm5 -overwrite -------------------------------------------------------------- selxavg3-sess logfile is /autofs/space/multnomah_003/users/gow/PROZ06/StudyDir/l og/selxavg3-sess-bold-sm-gamma-fwhm5-071012122828.log -------------------------------------------------------------- ------------------------------------------- /autofs/space/multnomah_003/users/gow/PROZ06/MRI/PROZ06004 Fri Oct 12 12:28:28 EDT 2007 anadir = /autofs/space/multnomah_003/users/gow/PROZ06/MRI/PROZ06004/bold/sm-gamm a-fwhm5 analysis sm-gamma-fwhm5 alread exists for PROZ06004 ... reanalyzing (deleting old analysis) ------------------------------------------ ------- matlab output -------------------- Warning: Unable to open display iconic, MATLAB is starting without a display. You will not be able to display graphics on the screen. Warning: MATLAB is starting without a display, using internal event queue. You will not be able to display graphics on the screen.
< M A T L A B > Copyright 1984-2005 The MathWorks, Inc. Version 7.1.0.183 (R14) Service Pack 3 August 02, 2005
To get started, type one of these: helpwin, helpdesk, or demo. For product information, visit www.mathworks.com.
Adding MNE Toolbox...
>> >> >> >> /usr/local/freesurfer/stable4/fsfast/toolbox/fast_selxavg3.
m
>> >> >> >> >> >> >> >> >> >> >> >> >> >> $Id: fast_selxavg3.m,v
1.55.2 .1 2007/09/27 15:25:58 greve Exp $ outtop = /autofs/space/multnomah_003/users/gow/PROZ06/MRI Extension format = nii UseFloat = 0 INFO: acfbins is not set, setting to 10 INFO: mask is not set, setting to brain 1 simple-v-complex.mat Loaded /autofs/space/multnomah_003/users/gow/PROZ06/MRI/PROZ06004/bold/010/parfi le1.par as a par2 file. nruns = 1 autostimdur = 1
outanadir = /autofs/space/multnomah_003/users/gow/PROZ06/MRI/PROZ06004/bold/sm-g amma-fwhm5 Found 49490/110592 (44.8) voxels in mask Creating Design Matrix Loaded /autofs/space/multnomah_003/users/gow/PROZ06/MRI/PROZ06004/bold/010/parfi le1.par as a par2 file. ntptot = 414, nX = 8, DOF = 406 XCond = 288.38 (normalized) Computing compensation for resdual AR1 bias 1 -0.5 -0.501599 (t=0.113866) 2 -0.25 -0.257524 (t=0.220947) 3 0 -0.0157544 (t=0.325266) 4 0.25 0.221692 (t=0.429817) 5 0.5 0.449162 (t=0.537974) AR1 Correction M: 0.0218428 1.0499 Computing contrast matrices Loaded /autofs/space/multnomah_003/users/gow/PROZ06/MRI/PROZ06004/bold/010/parfi le1.par as a par2 file. 1 simple-v-complex J= 1 eff = 78.7 vrf = 78.7205 vrfffx = 78.7205 r = 1. 00 OLS Beta Pass run 1 t= 0.0 Loaded /autofs/space/multnomah_003/users/gow/PROZ06/MRI/PROZ06004/bold/010/parfi le1.par as a par2 file. Global In-Mask Mean = 544.358 Rescale Target = 100 RescaleFactor = 0.183703 OLS Residual Pass run 1 t= 0.0 Loaded /autofs/space/multnomah_003/users/gow/PROZ06/MRI/PROZ06004/bold/010/parfi le1.par as a par2 file. ??? Error using ==> unknown Out of memory. Type HELP MEMORY for your options.
Error in ==> fast_selxavg3 at 417 rho1run = sum(rrun(1:end-1,:).*rrun(2:end,:))./rsserun;
ERROR: fast_selxavg3() failed\n multnomah:jsegawa[92]