[Simnibs-discuss] Charm Issue

[Mags McAllister]

Hello,

I have come across a very strange issue creating the reconstruction with charm. I input a T1 with full coverage of the skull, but the model it created looks like this. The T1_upsampled, T1_bias_corrected, and T1 nifti files in the m2m folder all show the full scan. The surface files however reflect only the bottom half of the brain like what I view in the simnibs gui.

I’m re-running this now with the same issue and can share the terminal output when it concludes. The command I used was ‘charm subID T1.nii.gz’.

I appreciate any advice or thoughts others have!
Mags M.

[A picture containing colorful  Description automatically generated]
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <https://mailman.drcmr.dk/pipermail/simnibs-discuss/attachments/20230209/7b62f0b7/attachment-0001.html>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: image001.png
Type: image/png
Size: 123103 bytes
Desc: image001.png
URL: <https://mailman.drcmr.dk/pipermail/simnibs-discuss/attachments/20230209/7b62f0b7/attachment-0001.png>