Great, thanks. The nu.mgz is attached. 

Corinna

On Wed, May 5, 2021 at 6:47 PM Fischl, Bruce <BFISCHL@mgh.harvard.edu> wrote:

Hmmmm, if you send us the data we will take a look. Just the inputs to mri_normalize should do it for this case

Cheers

Bruce

 

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> On Behalf Of Corinna Bauer
Sent: Wednesday, May 5, 2021 6:45 PM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] error at 3d normalization pass 1 of 2 stage with MP2RAGE data

 

        External Email - Use Caution        

Hi Bruce,

 

The nu.mgz input into mri_normalize looks ok to me (screenshot attached), as does the talairach registration.

 

Corinna

 

On Wed, May 5, 2021 at 5:39 PM Fischl, Bruce <BFISCHL@mgh.harvard.edu> wrote:

Can you take a look at the volume that was the input to mri_normalize and see if it looks ok? And check the talairach

 

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> On Behalf Of Corinna Bauer
Sent: Wednesday, May 5, 2021 5:25 PM
To: Mailing Freesurfer List <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] error at 3d normalization pass 1 of 2 stage with MP2RAGE data

 

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Hello all,

 

I am trying to run recon-all on MP2RAGE data from Philips and it exits with errors at this point:

3d normalization pass 1 of 2
error: No such file or directory
error: MRInormFindControlPoints: could not find enough control points

error: No such file or directory
error: MRInormFindControlPoints failed
Command exited with non-zero status 253

 

The log file is attached. The input file was the MPRAGE generated on the scanner console (i.e. not the T1 map). I attached a screenshot of orig.mgz viewed in fsleyes. Any thoughts?

 

Thanks!

 

Corinna

 

 

 

 

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