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Converts a file from MNI polygonal surface mesh format (.obj
*) or
vertex-wise data (e.g. curvature, cortical thickness, *.txt
)
to Surf-Ice MZ3 (.mz3
).
Useful for visualizing surfaces using Surf-Ice or NiiVue.
[!WARNING] *Not to be confused with Wavefront .obj, which is a different spec but with the same file extension.
There are many ways to install and use mni2mz3
. Linux, Mac, and Windows are supported.
The easiest way to run mni2mz3
is on ChRIS, no installation needed.
Simply upload your data to a feed in https://app.chrisproject.org, then run pl-mni2common
.
pl-mni2common
is a ChRIS plugin wrapper for mni2mz3
, which means you can
use its container image to run mni2mz3
.
apptainer run docker://ghcr.io/fnndsc/pl-mni2common:latest mni2mz3 input.obj output.mz3
Call the wrapper script mni2mz3
instead to do bulk processing on an input directory.
apptainer run docker://ghcr.io/fnndsc/pl-mni2common:latest mni2mz3 inputdir/ outputdir/
cargo binstall mni2mz3
pip install mni2mz3
Select and download the right binary for your architecture and OS from GitHub Releases: https://github.com/FNNDSC/mni2mz3/releases/latest
Install Rust, then run
cargo install mni2mz3
# convert mesh
mni2mz3 surface_81920.obj surface.mz3
# convert data
mni2mz3 thickness.txt thickness.mz3
To do bulk conversions, use the ChRIS plugin wrapper.
It is recommended to install cargo-nextest.
cargo nextest run
FAQs
Brain imaging surface mesh file format converter
We found that mni2mz3 demonstrated a healthy version release cadence and project activity because the last version was released less than a year ago. It has 1 open source maintainer collaborating on the project.
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