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Hi Dr. Greve,

I am using FS 6.0 on Ubuntu 18.04.

Unfortunately, no mri_glmfit-sim log file is generated when I attempt to run mri_glmfit-sim.

Best,
Alex

Alex Brown
CNS Core Facility
Department of Psychological Sciences
115 Melvin H. Marx Building
1416 Carrie Francke Drive
Columbia, MO 65211
Contact: 573-884-8779
From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Douglas N. Greve <dgreve@mgh.harvard.edu>
Sent: Wednesday, November 10, 2021 4:40 PM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] permutation simulation errror
 
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Which version of FS are you using? Can you send the log file created by mri_glmfit-sim (different than the one you sent)?

On 11/10/2021 3:49 PM, Brown, Alexander wrote:

        External Email - Use Caution        

Hello,

I am attempting to run a permutation simulation to correct for multiple comparisons and am getting the following error:

< mri_glmfit-sim --glmdir /home/cns_2/Desktop/SC_PF_analysis/qdec/Untitled --perm 1000 1.3 neg --perm-resid
ERROR: cannot find residual /home/cns_2/Desktop/SC_PF_analysis/qdec/Untitled/eres needed with --perm-resid
  when running mri_glmfit, make sure to include --eres-save >

Attached is the mri glmfit log. I ran the command with the --eres-save flag, and the eres.mgh file is generated in the glm directory.

I have downloaded the patch and have run this style of analysis multiple times without issue until today.

I appreciate any help!

Please let me know if you need any additional information.

Thanks,
Alex

Alex Brown
CNS Core Facility
Department of Psychological Sciences
115 Melvin H. Marx Building
1416 Carrie Francke Drive
Columbia, MO 65211
Contact: 573-884-8779

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