Re: [Freesurfer] trac-all using nifti

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Hi Anastasia,

Nope, I don't actually get any output and/or log file.

Regards, Heidi Foo

On Tue, Sep 18, 2018 at 6:12 PM Yendiki, Anastasia AYENDIKI@mgh.harvard.edu wrote:

Hi Heidi - The config file that you sent looked fine to me. What is the trac-all command line that you run, and do you get any other output (like a trac-all.log file)?

Best,

a.y

*From:* freesurfer-bounces@nmr.mgh.harvard.edu < freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Heidi Emmanuel Foo < heidifoo92@gmail.com> *Sent:* Monday, September 17, 2018 11:03:47 PM *To:* Freesurfer support list *Subject:* Re: [Freesurfer] trac-all using nifti

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Hi Anastasia,

It seems like I do. Could the problem be the config.txt?

Thanks!

Best Regards, Heidi Foo

On Tue, Sep 18, 2018 at 12:47 AM Yendiki, Anastasia < AYENDIKI@mgh.harvard.edu> wrote:

Hi Heidi – Do you have write permission to create the output directory /data_int/heidi/forHeidi/Preprocessed?

a.y

From: freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Heidi Emmanuel Foo heidifoo92@gmail.com Reply-To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Date: Monday, September 17, 2018 at 12:55 AM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] trac-all using nifti

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Hi Anastasia,

I am currently trying to run trac-all with my DWI data. I do not have the DICOM but only the Nifti files and I would like to use the same bval and bvec template for every subject. I created a configiration file as attached. However, I have the following error message:

: Command not found. : Command not found. set: Variable name must begin with a letter. does not exist.DIR /data_int/heidi/forHeidi/Preprocessed

It would be great if you could advise me on what to do.

Thank you!

Best Regards, Heidi Foo

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