Hi,
I encountered an error with "selxavg-sess -sf sessid -df sessdir -analysis loc-sm3". Looking through the archives I found that others had errors with selxavg-sess but the errors don't seem to be exactly the same as mine.
Please let me know if you have any suggestions on how to get this to work.
My log file is pasted at the bottom of this email.
I use the PowerPC version of freesurferv4.0.1 ---------------------------------------------------------------------
FREESURFER_HOME: /Software/freesurfer
Build stamp: freesurfer-Darwin-tiger-stable-pub-v4.0.1
Kernel info: Darwin 8.10.0 Power Macintosh
---------------------------------------------------------------------
Thanks a lot! Leila
selxavg-sess log file $Id: selxavg-sess,v 1.18 2007/01/09 22:41:18 nicks Exp $ uid=1132(lreddy) gid=1132(lreddy) groups=1132(lreddy), 1185(kraskov), 1152(rodri), 1090(psycho) /Users/lreddy/Desktop/Leila-Data/Imagery/imagery_analysis/RSK006 /Software/freesurfer/fsfast/bin/selxavg-sess -sf sessid -df sessdir -analysis loc-test Darwin wagner.klab.caltech.edu 8.11.0 Darwin Kernel Version 8.11.0: Wed Oct 10 18:26:00 PDT 2007; root:xnu-792.24.17~1/RELEASE_PPC Power Macintosh powerpc Sun Nov 18 20:20:37 PST 2007 selxavg: Command not found. ------------------------------------------- /Users/lreddy/Desktop/Leila-Data/Imagery/imagery_data/RSK006 Sun Nov 18 20:20:37 PST 2007 -------------------------------------------------------- /Users/lreddy/Desktop/Leila-Data/Imagery/imagery_data/RSK006/bold selxavg2 -TR 2.0000 -parname loc.para -o loc-test/h -i 011/f -i 021/f -i 025/f -cfg /Users/lreddy/Desktop/Leila-Data/Imagery/imagery_analysis/RSK006/loc-test/analysis.cfg -ipr 3 -pomnibus loc-test/omnibus/fsig -fomnibus loc-test/omnibus/f -------------------------------------------------------- here --- Parsing Config File: /Users/lreddy/Desktop/Leila-Data/Imagery/imagery_analysis/RSK006/loc-test/analysis.cfg ---- -gammafit 2.25 1.25 -timewindow 30 -prestim 6 -polyfit 1 -TER 2 -nskip 0 -fwhm 0 -extreg mcextreg -nextreg 3 -rescale 1000 Logfile is loc-test/h_sxa.log matlab file is /tmp/sxa_6634.m ----------- Matlab file -------------- % Matlab file for selxavg2 Sun Nov 18 20:20:38 PST 2007 % This file may be deleted % /tmp/sxa_6634.m global QuitOnError; QuitOnError = 1; r = fast_selxavg( '-TR', '2.0000', '-parname', 'loc.para', '-o', 'loc-test/h', '-i', '011/f', '-i', '021/f', '-i', '025/f', '-cfg', '/Users/lreddy/Desktop/Leila-Data/Imagery/imagery_analysis/RSK006/loc-test/analysis.cfg', '-ipr', '3', '-pomnibus', 'loc-test/omnibus/fsig', '-fomnibus', 'loc-test/omnibus/f'); if(r==0)
fmri_touch('/Users/lreddy/Desktop/Leila-Data/Imagery/imagery_data/RSK006/bold/loc-test/selxavg.ok.6634'); end exit qoe;
----------------------------------- ------------------------------------------ ------- 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 1984-2006 The MathWorks, Inc. Version 7.2.0.283 (R2006a) January 27, 2006
To get started, type one of these: helpwin, helpdesk, or demo. For product information, visit www.mathworks.com.
Warning: Duplicate directory name: /home/lreddy/matlab.
In path at 113
In startup at 380 In matlabrc at 216
>> >> >> $Id: fast_selxavg.m,v 1.40 2007/01/15 02:29:36 greve Exp $
Parsing Arguments RescaleTarget = 1000 UseMRIread = 1, ext = bhdr Checking Parameters nslices = 32 AutoStimDur: 0 StimDur: Number of Runs: 3 Input Volume List 1 011/f 2 021/f 3 025/f Input Pardigm File List 1 011/loc.para 2 021/loc.para 3 025/loc.para Output Volume loc-test/h F Omnibus Volume loc-test/omnibus/f Sig Omnibus Volume loc-test/omnibus/fsig TR 2.000000 TER 2.000000 Total Window 30 PreStim Window 6 Remove Baseline 1 Remove Trend 0 Remove QTrend 0 Rescale Target 1000 nSkip 0 InPlane Res 3 FWHM 0 Hanning Radius 0 Time Offset 0 GammaFit 1 1 2.25 1.25 GammaFit Alpha: 2 SPM HRF: -1 Seg Brain/Air 1 SynthSeed 0 ExtReg File mcextreg NExtReg 3 ExtRegOrthog 0 firstslice 0 nslices 32 nyqreg 0 SynthSeed = 0 Conditions Found (4): 1 2 3 4 Run 1: 32 32 32 32 Run 2: 32 32 32 32 Run 3: 32 32 32 32 Slice 0, 9.29485e-05 -------------- First Pass (Accumulation), 0.000672511 Run 1/3, 0.00150713 Excluding 0 Points: Warning: Divide by zero.
In fast_selxavg at 440
Loading 011/f Run 2/3, 3.50438 Excluding 0 Points: Warning: Divide by zero.
In fast_selxavg at 440
Loading 021/f Run 3/3, 6.90937 Excluding 0 Points: Warning: Divide by zero.
In fast_selxavg at 440
Loading 025/f Second Pass (Residual Error Estimation), 9.85656 ??? Error using ==> svd NaN or Inf prevents convergence.
Error in ==> cond at 40 s = svd(A);
Error in ==> fast_selxavg at 239 c = cond(SumXtWX);
??? Undefined function or variable 'r'.
ERROR: fast_selxavg() failed\n
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