You need a newer version of glmfit. This is not the 5.1 I think.

Best Martin

Alex Hanganu <al.hanganu@yahoo.ca> wrote:

Hello Martin,

thanks for the help, I changed all the scripts from that page, but the problem still persisted, so one of our colleagues found that the mri_glmfit from the ReleaseNotes (15.8MB) is for Linux, and we are using mac, so we changed back the mri_glmfit to the old version (6MB), and now we have another error:

-----------------------------

SUBJECT pls_pd_base00  Running Within-Subject GLM

Writing ./tmp-pls_pd_base00_lh_thickness_CMeqOW/X-long.mat ...

mri_glmfit --y ./pls_pd_base00/surf/lh.long.thickness-stack.mgh --X ./tmp-pls_pd_base00_lh_thickness_CMeqOW/X-long.mat --allow-zero-dof  --no-contrasts-ok --surf pls_pd_base00 lh --label ./pls_pd_base00/label/lh.long.cortex.label --glmdir ./tmp-pls_pd_base00_lh_thickness_CMeqOW/glm

ERROR: Option --allow-zero-dof unknown

ERROR 255 : mri_glmfit did not work?

-----------------------------

Any ideas ?

Thanks for the help,

Best regards,

Alex.

---

De : Martin Reuter <mreuter@nmr.mgh.harvard.edu>
À : Alexandru Hanganu <al.hanganu@yahoo.ca>; FS Mailing List <Freesurfer@nmr.mgh.harvard.edu>
Envoyé le : mercredi 3 octobre 2012 17h30
Objet : Re: [Freesurfer] long_mris_slopes error

Not sure.
Maybe try the updated scripts
From
http://martinos.org/~mreuter/long/

Best Martin

Alex Hanganu <al.hanganu@yahoo.ca> wrote:

Dear Freesurfer Experts,

While performing the long_mris_slopes cmd, we receive an error:


SUBJECT pls_pd_base00  Running Within-Subject GLM

Writing ./tmp-pls_pd_base00_lh_thickness_Rx7HLs/X-long.mat ...

mri_glmfit --y 
/Applications/freesurfer/subjects/pls_pd_base00/surf/lh.long.thickness-stack.mgh 
--X ./tmp-pls_pd_base00_lh_thickness_Rx7HLs/X-long.mat --allow-zero-dof 
--no-contrasts-ok --surf pls_pd_base00 lh --label 
/Applications/freesurfer/subjects/pls_pd_base00/label/lh.long.cortex.label 
--glmdir ./tmp-pls_pd_base00_lh_thickness_Rx7HLs/glm

Traceback (most recent call last):
File "/Applications/freesurfer/bin/long_mris_slopes", line 732, in 
<module>
run_cmd(cmd,'mri_glmfit did not
 work?')
File
 "/Applications/freesurfer/bin/long_mris_slopes", line 422, in 
run_cmd
retcode = subprocess.call(args)
File 
"/System/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/subprocess.py", 
line 443, in call
return Popen(*popenargs, **kwargs).wait()
File 
"/System/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/subprocess.py", 
line 593, in __init__
errread, errwrite)
File 
"/System/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/subprocess.py", 
line 1079, in _execute_child
raise child_exception
OSError: [Errno 8] Exec format error


we changed the mris_calc and mri_glmfit files with the new ones (8.2MB / 
15.8MB).

Can you please help
with this
 ?

Thank you in advance,

Sincerely,
Alex.


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