that could certainly be a problem. Is it really just a single value throughout the brain? If so, that is the problem. On the other hand, it could be that the freeview intensity limits are not set well, so try playing with those. You can also click on voxels in the brain and look at the values in the panel.

On 8/23/2024 11:52 AM, Nelson, Eric (Campus) wrote:

External Email - Use Caution

Hello all,

I am using the longitudinal pipeline and keep getting the following error when generating the base for one of our subjects. I have 3 timepoints I am including. I have checked the nu.mgz and orig.mgz files for both the base and each time point. Everything looks fine with the exception of the nu.mgz for timepoint 1 (which is a solid white and looks like a mask). Could this be the problem? I have re-run recon-all for that cross sectional subject, but the image remains the same. Attached the full recon-all.log from the base output.

3d normalization pass 1 of 2

error: MRInormFindControlPoints: could not find enough control points

error: MRInormFindControlPoints failed

@#@FSTIME 2024:08:16:18:05:30 mri_normalize N 10 e 10.45 S 0.04 U 10.40 P 99% M 434992 F 0 R 10859 W 0 c 4 w 11 I 0 O 0 L 1.14 0.90 0.57

@#@FSLOADPOST 2024:08:16:18:05:40 mri_normalize N 10 1.19 0.92 0.58

Linux c0235 3.10.0-1160.24.1.el7.x86_64 #1 SMP Thu Mar 25 21:21:56 UTC 2021 x86_64 x86_64 x86_64 GNU/Linux

Best,

Eric Nelson, Ph.D. | Postdoctoral Fellow

Department of Psychiatry and Behavioral Neurobiology

School of Medicine

UAB | The University of Alabama at Birmingham
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer