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Thanks Doug,

I was running that on some mock subject data and realized that I repeated the same subjects a number of times.

Thank you!

Nárlon Cássio

Nárlon Cássio Boa Sorte Silva PhD (He, Him, His) CIHR and MSFHR/PARF Postdoctoral Research Fellow Aging, Mobility, and Cognitive Health Lab Djavad Mowafaghian Centre for Brain Health Department of Physical Therapy, Faculty of Medicine University of British Columbia Vancouver, Canada Twitter: @BoaNarlon

On Aug 2, 2021, at 8:09 AM, Douglas N. Greve <dgreve@mgh.harvard.edumailto:dgreve@mgh.harvard.edu> wrote:

[CAUTION: Non-UBC Email] It is measuring the smoothness of your data as 1240mm. This is the full-width/half-max of a gaussian, so it is extremely huge. I'm guessing that there is someong wrong with your data. If you can't figure it out, send the terminal output from the mri_glmfit run.

On 7/26/2021 10:10 AM, Boa Sorte Silva, Narlon wrote:

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Dear experts, I am running this command to apply correction for multiple comparisons on my data:

mri_glmfit-sim --glmdir a_glm_results/lh.thickness.velocity.10.glmdir \ --cache 1.3 abs \ --cwp 0.05 \ --2spaces

However, I receive the following error:

INFO: unrecognized mri_glmfit cmd option doss ... probably not a problem

SURFACE: fsaverage lh log file is a_glm_results/lh.thickness.velocity.10.glmdir/cache.mri_glmfit-sim.log

cd /Users/narlonsilva/Desktop/freesufer_subjects /Applications/freesurfer/7.1.1/bin/mri_glmfit-sim --glmdir a_glm_results/lh.thickness.velocity.10.glmdir --cache 1.3 abs --cwp 0.05

FreeSurferEnv.csh 7.1.1 Mon Jul 26 10:02:49 EDT 2021 Darwin Narlons-MacBook-Pro.local 20.4.0 Darwin Kernel Version 20.4.0: Thu Apr 22 21:46:47 PDT 2021; root:xnu-7195.101.2~1/RELEASE_X86_64 x86_64 narlonsilva setenv SUBJECTS_DIR /Users/narlonsilva/Desktop/freesufer_subjects FREESURFER_HOME /Applications/freesurfer/7.1.1

Original mri_glmfit command line: cmdline mri_glmfit --y a_cat_data/lh.thickness.velocity.10.mgh --fsgd a_fsgd/velocity.fsgd doss --C a_contrasts/velocity_sex_age.mtx --surf fsaverage lh --cortex --glmdir a_glm_results/lh.thickness.velocity.10.glmdir

DoSim = 0 UseCache = 1 DoPoll = 0 DoPBSubmit = 0 DoBackground = 0 DiagCluster = 0 gd2mtx = doss fwhm = 1240.684619 ERROR: cannot find /Applications/freesurfer/7.1.1/average/mult-comp-cor/fsaverage/lh/cortex/fwhm1241/abs/th13/mc-z.csd I was wondering how to fix the error? Thank you! I have a MacBook Pro: macOS Big Sur version 11.3.1. Best regards, Nárlon Cássio

Nárlon Cássio Boa Sorte Silva PhD (He, Him, His) CIHR and MSFHR/PARF Postdoctoral Research Fellow Aging, Mobility, and Cognitive Health Lab Djavad Mowafaghian Centre for Brain Health Department of Physical Therapy, Faculty of Medicine University of British Columbia Vancouver, Canada Twitter: @BoaNarlon

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