[Simnibs-discuss] Meshfix error in SimNIBS-3.2.3

[Tayeb Zaidi]

Hi Oula,

   I just checked and am using FreeSurfer 7.1.1 -- I didn't know that
mri2mesh doesn't support Freesurfer 7 and greater. Is this information in
the mri2mesh documentation? Either way, thanks for your help! I'll install
FreeSurfer 6 for now and retry.

Regards,
Tayeb

On Thu, Apr 29, 2021 at 7:48 AM Oula <oulap at drcmr.dk> wrote:

> Hi Tayeb,
>
>
>
> Which version of FreeSurfer are you using? Due to a change in surface data
> formats, mri2mesh does not support FS versions >= 7.0
>
>
>
> Best,
>
> Oula
>
>
>
> *Lähettäjä: *Tayeb Zaidi <tayebzaidi at gmail.com>
> *Lähetetty: *29. april 2021 09:10
> *Vastaanottaja: *discuss at simnibs.org
> *Aihe: *[Simnibs-discuss] Meshfix error in SimNIBS-3.2.3
>
>
>
> Hello,
>
>
>
>     I've been working to use SimNIBS-3.2 to generate head segmentation for
> several subjects from the Human Connectome Project. When running "mri2mesh
> --all subjectnumber T1w.nii T2w.nii" I successfully finish recon-all from
> Freesurfer and then the mri2mesh script raises an error when creating the
> subcortical mask. The exact error is:
>
> "
>
> mris_convert ./opticrad_FS.fsmesh ./opticrad_FS.stl
>
> /home/awarru/SimNIBS-3.2/simnibs_env/lib/python3.7/site-packages/simnibs/bin/linux/meshfix
> subcortical_FS.stl -a 2.0 --remove-handles -q -o subcortical.off
>
> ERROR- fseek
> /home/guilherme/simnibs_misc/meshfix/contrib/JMeshLib/src/MESH_STRUCTURE/io.cpp:1335
> failed.error code 255
>
> "
>
>
>
> It seems like there is an error within meshfix.  In a prior thread on this
> mailing list (
> https://mailman.drcmr.dk/pipermail/simnibs-discuss/2020-May/000051.html)
> this issue was raised and it wasn't clear if there was a resolution. I have
> looked at the subcortical_FS.stl file and it looks like how I would expect
> in a mesh viewer.
>
> I am running these commands on a T5810 workstation with Ubuntu 20.04
> installed.
>
> Is there any solution to this issue?
>
>
>
> Thanks,
>
> Tayeb Zaidi
>
>
>
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