Dear Experts,
during an fsfast analysis an error occured after selxavg3-sess was executed. The corresponding commands were:
mkanalysis-sess -fsd bold -surface self lh -fwhm 0 -event-related -paradigm sensory.par -nconditions 1 -spmhrf 0 -TR 2 -refeventdur 10 -nskip 8 -polyfit 2 -analysis analysis.lh -delay 0 -per-run -force -mcextreg mkcontrast-sess -analysis analysis.lh -contrast stim-v-base -a 1
selxavg3-sess -s ./sessdir -analysis analysis.lh -no-preproc -force
The output of selxavg3-sess was:
>> >> >> >>
sxa3pwd =
/.../evaluation
sxa3cmd =
/usr/local/freesurfer/fsfast/bin/selxavg3-sess -s ./sessdir -analysis analysis.lh -no-preproc -force
/usr/local/freesurfer/fsfast/toolbox/fast_selxavg3.m
>> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >>
#@# sessdir ############################### /.../evaluation/sessdir ------------------------- $Id: fast_selxavg3.m,v 1.100.2.2 2012/11/30 18:40:38 greve Exp $ /usr/local/freesurfer/fsfast/toolbox/fast_selxavg3.m /usr/local/freesurfer/fsfast/toolbox/fast_ldanaflac.m /usr/local/freesurfer/matlab/MRIread.m ------------------------- outtop = /.../evaluation Extension format = nii.gz 1 stim-v-base.mat Excluding 8 points nruns = 1 autostimdur =
outanadir = /.../evaluation/sessdir/bold/analysis.lh Excluding 8 points Found 145573/155188 (93.8) voxels in mask Creating Design Matrix ... creation time = 0.008 sec DoMCFit = 1 ntptot = 108, nX = 15, DOF = 93 Saving X matrix to /.../evaluation/sessdir/bold/analysis.lh/Xtmp.mat XCond = 64.7067 (normalized) Computing compensation for resdual AR1 bias 1 -0.5 -0.468819 (t=0.005249) 2 -0.25 -0.252194 (t=0.007053) 3 0 -0.0449419 (t=0.008126) 4 0.25 0.149516 (t=0.00935) 5 0.5 0.319324 (t=0.010795) AR1 Correction M: 0.0749452 1.26122 Computing contrast matrices OLS Beta Pass run 1 t= 0.0 Global Mean Global In-Mask Mean = (0.664951) ??? Error using ==> mrdivide Matrix dimensions must agree.
Error in ==> fast_selxavg3 at 434 RescaleFactor = flac0.inorm/gmean;
ERROR: fast_selxavg3() failed\n
Do you have an idea what went wrong?
Sincerely yours pfannmoe
This is a strange error that I cannot figure out from the terminal output. What version of FS are you using? Here's something you can try:
Run selxavg3-sess with --monly sxa3.m This will return right away having created sxa3.m
Start matlab and run sxa3. It will stop at the error below. Then type
flac0.inorm
gmean
Each of these will print something out to the terminal. Send the results to the list
doug
On 06/02/2014 06:27 AM, pfannmoelj@uni-greifswald.de wrote:
Dear Experts,
during an fsfast analysis an error occured after selxavg3-sess was executed. The corresponding commands were:
mkanalysis-sess -fsd bold -surface self lh -fwhm 0 -event-related -paradigm sensory.par -nconditions 1 -spmhrf 0 -TR 2 -refeventdur 10 -nskip 8 -polyfit 2 -analysis analysis.lh -delay 0 -per-run -force -mcextreg mkcontrast-sess -analysis analysis.lh -contrast stim-v-base -a 1
selxavg3-sess -s ./sessdir -analysis analysis.lh -no-preproc -force
The output of selxavg3-sess was:
sxa3pwd =
/.../evaluation
sxa3cmd =
/usr/local/freesurfer/fsfast/bin/selxavg3-sess -s ./sessdir -analysis analysis.lh -no-preproc -force
/usr/local/freesurfer/fsfast/toolbox/fast_selxavg3.m
#@# sessdir ############################### /.../evaluation/sessdir
$Id: fast_selxavg3.m,v 1.100.2.2 2012/11/30 18:40:38 greve Exp $ /usr/local/freesurfer/fsfast/toolbox/fast_selxavg3.m /usr/local/freesurfer/fsfast/toolbox/fast_ldanaflac.m /usr/local/freesurfer/matlab/MRIread.m
outtop = /.../evaluation Extension format = nii.gz 1 stim-v-base.mat Excluding 8 points nruns = 1 autostimdur =
outanadir = /.../evaluation/sessdir/bold/analysis.lh Excluding 8 points Found 145573/155188 (93.8) voxels in mask Creating Design Matrix ... creation time = 0.008 sec DoMCFit = 1 ntptot = 108, nX = 15, DOF = 93 Saving X matrix to /.../evaluation/sessdir/bold/analysis.lh/Xtmp.mat XCond = 64.7067 (normalized) Computing compensation for resdual AR1 bias 1 -0.5 -0.468819 (t=0.005249) 2 -0.25 -0.252194 (t=0.007053) 3 0 -0.0449419 (t=0.008126) 4 0.25 0.149516 (t=0.00935) 5 0.5 0.319324 (t=0.010795) AR1 Correction M: 0.0749452 1.26122 Computing contrast matrices OLS Beta Pass run 1 t= 0.0 Global Mean Global In-Mask Mean = (0.664951) ??? Error using ==> mrdivide Matrix dimensions must agree.
Error in ==> fast_selxavg3 at 434 RescaleFactor = flac0.inorm/gmean;
ERROR: fast_selxavg3() failed\n
Do you have an idea what went wrong?
Sincerely yours pfannmoe _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Thank you for your Help. I figured out that it was a problem with the data which caused this error.
On Wed, 04 Jun 2014 12:00:08 -0400 Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
This is a strange error that I cannot figure out from the terminal output. What version of FS are you using? Here's something you can try:
Run selxavg3-sess with --monly sxa3.m This will return right away having created sxa3.m
Start matlab and run sxa3. It will stop at the error below. Then type
flac0.inorm
gmean
Each of these will print something out to the terminal. Send the results to the list
doug
On 06/02/2014 06:27 AM, pfannmoelj@uni-greifswald.de wrote:
Dear Experts,
during an fsfast analysis an error occured after selxavg3-sess was executed. The corresponding commands were:
mkanalysis-sess -fsd bold -surface self lh -fwhm 0 -event-related -paradigm sensory.par -nconditions 1 -spmhrf 0 -TR 2 -refeventdur 10 -nskip 8 -polyfit 2 -analysis analysis.lh -delay 0 -per-run -force -mcextreg mkcontrast-sess -analysis analysis.lh -contrast stim-v-base -a 1
selxavg3-sess -s ./sessdir -analysis analysis.lh -no-preproc -force
The output of selxavg3-sess was:
sxa3pwd =
/.../evaluation
sxa3cmd =
/usr/local/freesurfer/fsfast/bin/selxavg3-sess -s ./sessdir -analysis analysis.lh -no-preproc -force
/usr/local/freesurfer/fsfast/toolbox/fast_selxavg3.m
#@# sessdir ############################### /.../evaluation/sessdir
$Id: fast_selxavg3.m,v 1.100.2.2 2012/11/30 18:40:38 greve Exp $ /usr/local/freesurfer/fsfast/toolbox/fast_selxavg3.m /usr/local/freesurfer/fsfast/toolbox/fast_ldanaflac.m /usr/local/freesurfer/matlab/MRIread.m
outtop = /.../evaluation Extension format = nii.gz 1 stim-v-base.mat Excluding 8 points nruns = 1 autostimdur =
outanadir = /.../evaluation/sessdir/bold/analysis.lh Excluding 8 points Found 145573/155188 (93.8) voxels in mask Creating Design Matrix ... creation time = 0.008 sec DoMCFit = 1 ntptot = 108, nX = 15, DOF = 93 Saving X matrix to /.../evaluation/sessdir/bold/analysis.lh/Xtmp.mat XCond = 64.7067 (normalized) Computing compensation for resdual AR1 bias 1 -0.5 -0.468819 (t=0.005249) 2 -0.25 -0.252194 (t=0.007053) 3 0 -0.0449419 (t=0.008126) 4 0.25 0.149516 (t=0.00935) 5 0.5 0.319324 (t=0.010795) AR1 Correction M: 0.0749452 1.26122 Computing contrast matrices OLS Beta Pass run 1 t= 0.0 Global Mean Global In-Mask Mean = (0.664951) ??? Error using ==> mrdivide Matrix dimensions must agree.
Error in ==> fast_selxavg3 at 434 RescaleFactor = flac0.inorm/gmean;
ERROR: fast_selxavg3() failed\n
Do you have an idea what went wrong?
Sincerely yours pfannmoe _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
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