[Simnibs-discuss] Meshfix error in SimNIBS-3.2.6, Running FSL 6.0.3

Margaret McAllister margaret.mcallister at duke.edu
Wed Oct 19 15:17:03 CEST 2022

Ah, I see my mistake. I thought that FSL was the acronym for FreeSurfer. I’ll try running with Free Surfer version<7. Please disregard.


From: Margaret McAllister <margaret.mcallister at duke.edu>
Date: Wednesday, October 19, 2022 at 9:06 AM
To: discuss at simnibs.org <discuss at simnibs.org>
Subject: Meshfix error in SimNIBS-3.2.6, Running FSL 6.0.3

I’m using SimNIBS-3.2.6 to generate head segmentation for a subject. I don’t have a T2 image for this participant. I am using mri2mesh because the scan does not include neck and shoulders. This is the error I encountered.

mris_convert ./opticrad_FS.fsmesh ./opticrad_FS.stl

/usr/local/packages/simnibs/3.2.6/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

exiting mri2mesh

In the previous discussion (linked below) this error was resolved by using a version of FSL >7. I am running fsl version 6.0.3 so that is not the issue for me.


Is there a solution to this issue?


Mags M.

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