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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