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<p>Hi Mo,</p>
<p>Haven't seen that error before. Is there any chance you could
share the data, so I can have a look?</p>
<p>I think this one will be tricky to solve "remotely" without the
data.</p>
<p>Best,</p>
<p>Oula</p>
<p><br>
</p>
<div class="moz-cite-prefix">On 8/18/22 04:53, Mo Chen wrote:<br>
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<blockquote type="cite"
cite="mid:CAEwsNW=2LJjQdd3ZiPVGb+zTi-3zTSPvq73h4NqkeOLaA=HG0g@mail.gmail.com">
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<div dir="ltr">Hi there,<br>
<br>
When we tried to use the <i><span class="gmail_default"
style="font-family:tahoma,sans-serif;font-size:small"></span>charm</i>
command with SimNIBS 4, it gave an error and suggested to use
the <i><span class="gmail_default"
style="font-family:tahoma,sans-serif;font-size:small"></span>--forceqform</i>
option. We then used the following charm command:<br>
<br>
<i><span class="gmail_default"
style="font-family:tahoma,sans-serif;font-size:small"></span>charm
subj T1.nii.gz T2.nii.gz --forceqform<br>
</i><br>
It kept giving an error of "<b><span class="gmail_default"
style="font-family:tahoma,sans-serif;font-size:small"></span>numpy.linalg.LinAlgError:
SVD did not converge</b>"<br>
<br>
Below are the details:<br>
<br>
Version: SimNIBS 4.0 beta 1 for linxu<br>
OS: Ubuntu 20.04.4 LTS<br>
Command: charm subj T1.nii.gz T2.nii.gz --forceqform<br>
<br>
Error message:<br>
...<br>
<i><span class="gmail_default"
style="font-family:tahoma,sans-serif;font-size:small"></span>Read
mesh collection:
/data/m2m_M87144843/segmentation/atlas_level2.txt.gz<br>
Transforming points<br>
Transforming points<br>
Read mesh collection:
/data/m2m_M87144843/segmentation/atlas_level2.txt.gz<br>
Read mesh collection:
/data/m2m_M87144843/segmentation/atlas_level2.txt.gz<br>
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)<br>
Read image:
/opt/SIMNIBS/simnibs_env/lib/python3.9/site-packages/simnibs/segmentation/atlases/charm_atlas_mni/template.nii<br>
Read mesh collection:
/data/m2m_M87144843/segmentation/atlas_level2.txt.gz<br>
<b><span class="gmail_default"
style="font-family:tahoma,sans-serif;font-size:small"></span>[
simnibs ]CRITICAL: Uncaught exception<br>
numpy.linalg.LinAlgError: SVD did not converge</b></i><br>
<br>
<br>
Any clue?<br>
<br>
Thanks,
<div>
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<div dir="ltr">--<br>
Mo Chen, PhD<br>
<br>
Clinical Scientist<br>
Neuroscience Research Program,
Research Department<br>
Gillette Children's Specialty
Healthcare<br>
<br>
Adjunct Associate Professor<br>
Department of Psychiatry and
Behavioral Sciences<br>
University of Minnesota<br>
<br>
Technical Consultant<br>
Non-invasive Neuromodulation
Laboratory<br>
Brian Conditions, MnDRIVE Initiative<br>
University of Minnesota
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