Re: [Freesurfer] Tracula Config file.

External Email - Use Caution

Hi Anastasia -

Thank you so much. I will do as you suggested.

best wishes

Alan

On Thu, Aug 4, 2022 at 12:04 PM Yendiki, Anastasia AYENDIKI@mgh.harvard.edu wrote:

Hi Alan - dcmroot is the root directory under which the dicom files are saved. It's actually optional. In your case, either of the following will have the same, correct effect:

set dcmroot = /home/afrancis/Imaging set dcmlist = (109123/109123_7T_DWI_dir72_AP_SBRef.nii.gz)

OR

set dcmlist = (/home/afrancis/Imaging/109123/109123_7T_DWI_dir72_AP_SBRef.nii.gz)

In addition, there are *a lot *of things that you left in there from the example RC file. You should delete them entirely, unless you specifically want to set one of those things to something other than the default. These are examples that may not give you the default behavior. Also the field mapping files - delete those lines because you're just using the example names and they're not going to work. You want your RC file to have the minimum necessary for your analysis.

Best, Anastasia.

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*From:* freesurfer-bounces@nmr.mgh.harvard.edu < freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Alan Francis < alandarkenergy@gmail.com> *Sent:* Thursday, August 4, 2022 12:23 PM *To:* Freesurfer freesurfer@nmr.mgh.harvard.edu *Subject:* [Freesurfer] Tracula Config file.

    External Email - Use Caution

Hi Anastasia -

Hope you are well. I am running tracula on FS 7.2. I created the RC file based on your recommendations. However it is giving me an error message when I run it. The error is : Unmatched ' " "

I have attached the RC file. Could you please see where I have made an error.

Thanks so much,

Best regards,

Alan

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• Alan N. Francis PhD Assistant Professor of Neuroscience Institute of

Neuroscience* *University of Texas, School of Medicine*

*Rio Grande Valley *

*Texas. *

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