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
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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
----- End forwarded message -----
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