Hi Sharon, you have to specify an analysis (as created by mkanalysis-sess) as the argument to -analysis doug
On 05/24/2013 10:35 AM, Yongxia Zhou wrote:
Dear Freesurfer experts: hi, I'm one of the attendees of the multi-modality training program. I had tried running fsfast in the mac and got an error message. Below is the detail information. Any of your suggestions is highly appreciated and thank you very much. -Sharon
OS: Mac OS X 10.5.6
[YongxiaZhous-MacBook:~/Desktop/DICOM/13051914] Young% pwd /Users/Young/Desktop/DICOM/13051914 [YongxiaZhous-MacBook:~/Desktop/DICOM/13051914] Young% selxavg3-sess -s sess01 -analysis /Users/Young/Desktop/DICOM/13051914/sess01/bold/raw/001/test01.sm05.lh
-no-preproc -c music_silence.mat
selxavg3-sess logfile is /Users/Young/Desktop/DICOM/13051914/log/selxavg3-sess-bold-test01.sm05.lh-130524090501.log
/Users/Young/Desktop/DICOM/13051914/sess01 Fri May 24 09:05:02 EDT 2013 anadir = /Users/Young/Desktop/DICOM/13051914/sess01/bold/test01.sm05.lh DoGLMFit = 1 DoContrasts = 1 UpdateNeeded = 1
------- 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.
< M A T L A B > Copyright 1984-2007 The MathWorks, Inc. Version 7.4.0.287 (R2007a) January 29, 2007Warning: Duplicate directory name: /Users/Young/matlab. Warning: Function /Users/Young/Downloads/matlab_bgl/test/assert.m has the same name as a MATLAB builtin. We suggest you rename the function to avoid a potential name conflict. To get started, type one of these: helpwin, helpdesk, or demo. For product information, visit www.mathworks.com http://www.mathworks.com/. Warning: Function /Users/Young/Downloads/matlab_bgl/test/assert.m has the same name as a MATLAB builtin. We suggest you rename the function to avoid a potential name conflict.
In hgrc at 132
In matlabrc at 105 Warning: Function /Users/Young/Downloads/matlab_bgl/test/assert.m has the same name as a MATLAB builtin. We suggest you rename the function to avoid a potential name conflict.
In path at 110
In startup at 5 In matlabrc at 255 Warning: Function /Users/Young/Downloads/matlab_bgl/test/assert.m has the same name as a MATLAB builtin. We suggest you rename the function to avoid a potential name conflict.
In path at 110
In startup at 14 In matlabrc at 255
> >> >> >> >> /Applications/freesurfer/fsfast/toolbox/fast_selxavg3.m > >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >>
#@# sess01 ############################### /Users/Young/Desktop/DICOM/13051914/sess01
$Id: fast_selxavg3.m,v 1.100 2011/03/02 16:14:38 greve Exp $ /Applications/freesurfer/fsfast/toolbox/fast_selxavg3.m /Applications/freesurfer/fsfast/toolbox/fast_ldanaflac.m /Applications/freesurfer/matlab/MRIread.m
outtop = /Users/Young/Desktop/DICOM/13051914 Extension format = nii.gz 1 music_silence.mat ??? Error using ==> MRIread at 76 ERROR: cannot determine format of /Users/Young/Desktop/DICOM/13051914/sess01/bold/001/fmc.siemens.sm5 (MRIread)
Error in ==> flac_customize at 87 mri = MRIread(fstem,1);
Error in ==> fast_selxavg3 at 65 flac0 = flac_customize(flac0);
2013-05-24 09:05:32.710 MATLAB[65661:60b] Process manager already
initialized -- can't fully enable headless mode.
ERROR: fast_selxavg3() failed\n
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