Re: [Freesurfer] Learning fsfast tutorial

[Greve, Douglas N.,Ph.D.]

You have to have the directory structure set up properly. You can put 
task and rest in the same session or in different sessions

On 10/24/19 9:43 AM, Renew Andrade wrote:
>
> External Email - Use Caution
>
> Dear FreeSurfer experts:
> I am trying to use my own data so I don’t have the same tutorial 
> structure. I do keep the folder structure as similar as possible in 
> order for FreeSurfer to run but I cannot have different sessions for 
> example I just have resting or bold but not both. Is it a problem when 
> running this analysis?
>
>
> This is my directory structure
>
>
> *➜ **~*cd /Users/andraderenew/Downloads/2
> *➜ **2**git:(**master**) **✗*ls
> *rest*
> *➜ **2**git:(**master**) **✗*cd rest
> *➜ **rest**git:(**master**) **✗*ls
> dti_FA.nii.gz dti_L2.nii.gz dti_MD.nii.gz dti_S0.nii.gz dti_V2.nii.gz
> dti_L1.nii.gz dti_L3.nii.gz dti_MO.nii.gz dti_V1.nii.gz dti_V3.nii.gz
> *➜ **rest**git:(**master**) **✗*
>
> Sincerely,
>  Andrade.
>
>
> look in sess01/bold, you should see 001 and 002. Do you?
>
> On 10/22/2019 9:40 AM, Renew Andrade wrote:
>  External Email - Use Caution
>
> Dear experts:
> I am trying to run preproc-sess -s sess01 -fsd bold -stc up -surface fsaverage
> lhrh -mni305 -fwhm 5 -per-run
> But the outcome is ERROR: no run directories found.
>
> What could be wrong?
> If you need more information let me know!
>
> Sincerely,
> Andrade.
>
>
>
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Re: [Freesurfer] Learning fsfast tutorial

[Renew Andrade]

External Email - Use Caution

Dear FreeSurfer experts:
I am trying to use my own data so I don’t have the same tutorial structure. I 
do keep the folder structure as similar as possible in order for FreeSurfer to 
run but I cannot have different sessions for example I just have resting or 
bold but not both. Is it a problem when running this analysis?


This is my directory structure


➜  ~ cd /Users/andraderenew/Downloads/2 
➜  2 git:(master) ✗ ls
rest
➜  2 git:(master) ✗ cd rest 
➜  rest git:(master) ✗ ls
dti_FA.nii.gz dti_L2.nii.gz dti_MD.nii.gz dti_S0.nii.gz dti_V2.nii.gz
dti_L1.nii.gz dti_L3.nii.gz dti_MO.nii.gz dti_V1.nii.gz dti_V3.nii.gz
➜  rest git:(master) ✗ 

Sincerely,
 Andrade.


look in sess01/bold, you should see 001 and 002. Do you?

On 10/22/2019 9:40 AM, Renew Andrade wrote:
External Email - Use Caution

Dear experts:
I am trying to run preproc-sess -s sess01 -fsd bold -stc up -surface fsaverage 
lhrh -mni305 -fwhm 5 -per-run
But the outcome is ERROR: no run directories found.

What could be wrong?
If you need more information let me know!

Sincerely,
Andrade.



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Re: [Freesurfer] Learning fsfast tutorial

[Greve, Douglas N.,Ph.D.]

look in sess01/bold, you should see 001 and 002. Do you?

On 10/22/2019 9:40 AM, Renew Andrade wrote:

External Email - Use Caution

Dear experts:
I am trying to run preproc-sess -s sess01 -fsd bold -stc up -surface fsaverage 
lhrh -mni305 -fwhm 5 -per-run
But the outcome is ERROR: no run directories found.

What could be wrong?
If you need more information let me know!

Sincerely,
Andrade.



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Freesurfer@nmr.mgh.harvard.edu
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[Freesurfer] Learning fsfast tutorial

[Renew Andrade]

External Email - Use Caution

Dear experts:
I am trying to run preproc-sess -s sess01 -fsd bold -stc up -surface fsaverage 
lhrh -mni305 -fwhm 5 -per-run
But the outcome is ERROR: no run directories found. 

What could be wrong? 
If you need more information let me know!

Sincerely,
Andrade. ___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer