[Simnibs-discuss] SimNIBS 4.0 beta1 charm command error: svg did not converge

[Oula]

Hi Mo,

Haven't seen that error before. Is there any chance you could share the 
data, so I can have a look?

I think this one will be tricky to solve "remotely" without the data.

Best,

Oula


On 8/18/22 04:53, Mo Chen wrote:
> Hi there,
>
> When we tried to use the /charm/ command with SimNIBS 4, it gave an 
> error and suggested to use the /--forceqform/ option. We then used the 
> following charm command:
>
> /charm subj T1.nii.gz T2.nii.gz --forceqform
> /
> It kept giving an error of "*numpy.linalg.LinAlgError: SVD did not 
> converge*"
>
> Below are the details:
>
> Version: SimNIBS 4.0 beta 1 for linxu
> OS: Ubuntu 20.04.4 LTS
> Command: charm subj T1.nii.gz T2.nii.gz --forceqform
>
> Error message:
> ...
> /Read mesh collection: 
> /data/m2m_M87144843/segmentation/atlas_level2.txt.gz
> Transforming points
> Transforming points
> Read mesh collection: /data/m2m_M87144843/segmentation/atlas_level2.txt.gz
> Read mesh collection: /data/m2m_M87144843/segmentation/atlas_level2.txt.gz
> Constructing image-to-world transform from header information 
> (/opt/SIMNIBS/simnibs_env/lib/python3.9/site-packages/simnibs/segmentation/atlases/charm_atlas_mni/template.nii)
> Read image: 
> /opt/SIMNIBS/simnibs_env/lib/python3.9/site-packages/simnibs/segmentation/atlases/charm_atlas_mni/template.nii
> Read mesh collection: /data/m2m_M87144843/segmentation/atlas_level2.txt.gz
> *[ simnibs ]CRITICAL: Uncaught exception
> numpy.linalg.LinAlgError: SVD did not converge*/
>
>
> Any clue?
>
> Thanks,
> --
> Mo Chen, PhD
>
> Clinical Scientist
> Neuroscience Research Program, Research Department
> Gillette Children's Specialty Healthcare
>
> Adjunct Associate Professor
> Department of Psychiatry and Behavioral Sciences
> University of Minnesota
>
> Technical Consultant
> Non-invasive Neuromodulation Laboratory
> Brian Conditions, MnDRIVE Initiative
> University of Minnesota
>
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