[Simnibs-discuss] [EXTERNAL] Re: SimNibs simple volumes

Tue Jun 21 09:43:03 CEST 2022

Hi Ben,

The files you created (at least the .stl) are surfaces. To use these in 
SimNIBS simulations you need volume meshes, i.e., tetrahedral meshes. 
I'm not familiar with .obj files, but you'd need to create volume meshes 
from the surfaces to import them into SimNIBS. To get started you can 
look at the .geo file that headreco generates. The name should be 
something like <subid>.geo. You can use that how to set up the .stl 
files to create a volume using gmsh. However, the surfaces need to be 
nested for that to work.

Best,
Oula

On 6/20/22 19:05, Benjamin Tessler wrote:
>
> Hi Axel,
>
> Thank you for the response. I’m trying to learn how to import various 
> volumes that I made in Autodesk, which exports STL and OBJ file 
> formats. I can’t see any documentation on how to either import that 
> into SimNIBS or convert it to nifti. It doesn’t import when I tried to 
> convert it to a msh file from the gmsh software. Maybe is there a 
> matlab script that can easily write nifti from an STL fomat?
>
> Best,
>
> Ben
>
> Sent from Mail <https://go.microsoft.com/fwlink/?LinkId=550986> for 
> Windows
>
> *From: *Axel Thielscher <mailto:axelt at drcmr.dk>
> *Sent: *Monday, June 13, 2022 5:57 AM
> *To: *Benjamin Tessler <mailto:benjamin.tessler at downstate.edu>; 
> discuss at simnibs.org
> *Subject: *[EXTERNAL] Re: [Simnibs-discuss] SimNibs simple volumes
>
> External email
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>
> Hi Benjamin,
>
> please try out simnibs 4 which is available as beta release.
>
> https://github.com/simnibs/simnibs/releases/tag/v4.0-beta1 
> <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2Fsimnibs%2Fsimnibs%2Freleases%2Ftag%2Fv4.0-beta1&data=05%7C01%7Cbenjamin.tessler%40downstate.edu%7Cef823821e0f14609415108da4d232160%7C22670793760f482993153e427c362e69%7C0%7C0%7C637907110528316982%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=hr9UiRptmBkHE1T5eddNWA%2BhEAmaGte08wgOEgf3rwo%3D&reserved=0>
>
> It has new options to use custom-made meshes.
>
> After installation, click on index.html in the docs-folder to see the 
> documentation for simnibs 4. Then follow the tutorial "How to create 
> and use a custom mesh".
>
> Best,
>
> Axel
>
> On 08-06-2022 20:16, Benjamin Tessler wrote:
>
>     Hi,
>
>     I’m trying to just stimulate a block. What CAD do you recommend to
>     use? I’m using Autodesk fusion 360 to make STL files. Then I use
>     gmesh to make a msh file, but it won’t import into simnibs. Is
>     there a simple way to make simple volumes?
>
>     Best,
>
>     Ben
>
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