Hi Martin,

Thanks for your response. When I run the command alone, the following message appears:

mri_convert --frame 0 ./tmp-0001_base_lh_thickness_U5R6w6/glm/beta.mgh ./tmp-0001_base_lh_thickness_U5R6w6/beta0.mgh bash: /Applications/freesurfer//bin/mri_convert: cannot execute binary file

I've made these files executable (chmod +x <filename>) but that does not appear to make a difference. I'm currently operating on a 64 bit Mac osX 10.7.5. I downloaded the bug fix from https://surfer.nmr.mgh.harvard.edu/fswiki/ReleaseNotes. Is there another version located elsewhere that has a solution that is more appropriate to my operating system?

Thanks for your help,

Katherine Reiter, M.S.

Clinical Psychology Doctoral Student

Marquette University Phone: (414) 288-3807 Email: katherine.reiter@marquette.edu

On Mon, May 19, 2014 at 3:33 PM, Martin Reuter mreuter@nmr.mgh.harvard.eduwrote:

Hi Katherine,

are you sure you downloaded the right executable for your operating system? It seems to be not able to run the command (exec format error). Did you replace mri_convert? what happens if you run the command yourself:

mri_convert --frame 0 ./tmp-0001_base_lh_thickness_3f8Byr/glm/beta.mgh ./tmp-0001_base_lh_thickness_3f8Byr/beta0.mgh

Best, Martin

On 05/16/2014 04:45 PM, Katherine Reiter wrote:

Hi Freesurfer experts,

I'm working on analyzing longitudinal data using the longitudinal 2-stage model. When running the data through long_mris_slopes, I was getting the following error message: ERROR 1 : mris_calc compute sym. pct. change (spc) problem?

I saw in previous messages that this is the result of a bug. I found the fix under the release notes, though after downloading it and placing the fix in the bin and makign these files executable, I keep receiving the following error messages. Does anyone have any insight into the problem and possible solutions?

mri_convert --frame 0 ./tmp-0001_base_lh_thickness_3f8Byr/glm/beta.mgh ./tmp-0001_base_lh_thickness_3f8Byr/beta0.mgh

Traceback (most recent call last): File "/Applications/freesurfer//bin/long_mris_slopes", line 744, in

<module> run_cmd(cmd,'mri_convert split frames 0 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/2.7/lib/python2.7/subprocess.py", line 486, in call return Popen(*popenargs, **kwargs).wait() File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/subprocess.py", line 672, in __init__ errread, errwrite) File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/subprocess.py", line 1202, in _execute_child raise child_exception OSError: [Errno 8] Exec format error

Thank you,

Katherine Reiter, M.S.

Clinical Psychology Doctoral Student

Marquette University Phone: (414) 288-3807 Email: katherine.reiter@marquette.edu

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-- Martin Reuter, Ph.D.

Instructor in Neurology Harvard Medical School Assistant in Neuroscience Dept. of Radiology, Massachusetts General Hospital Dept. of Neurology, Massachusetts General Hospital Research Affiliate Computer Science and Artificial Intelligence Lab, Dept. of Electrical Engineering and Computer Science, Massachusetts Institute of Technology

A.A.Martinos Center for Biomedical Imaging 149 Thirteenth Street, Suite 2301 Charlestown, MA 02129

Phone: +1-617-724-5652 Email: mreuter@nmr.mgh.harvard.edu reuter@mit.edu Web : http://reuter.mit.edu

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