General code update #50
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This does not work with Python 3.12, as ITK 5.3 is not compiled for it. Python 3.11 or earlier is required.
thewtex
reviewed
Aug 29, 2024
| @@ -785,7 +785,7 @@ | |||
| "name": "python", | |||
| "nbconvert_exporter": "python", | |||
| "pygments_lexer": "ipython3", | |||
| "version": "3.8.19" | |||
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This should stay at 3.8, which has been tested for the ML deps.
This is more suitable for debugging, and is a step towards full automation
These intermediate files can also be used for inspection later.
Applying RAS to LPS transform to atlas_FC_inner_mesh_world.ply atlas_TC_inner_mesh_world.ply makes them properly aligned with the atlas image.
The 3D to 2D projection results in smoother projection with the original atlas mesh, which has staircase-like artifacts.
It already existed here: notebooks\OAIData\atlas_image.nii.gz
Originally I used the image normalization method from uniGradICON, assuming it is the same as what was used before.
Keep large islands and islands close to atlas mesh, discard the rest.
* Add pipeline steps * General update * Remove old registration approaches
dzenanz
changed the title
This allows CI's torch version to be used.
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This does not work with Python 3.12, as ITK 5.3 is not compiled for it.
Python 3.11 or earlier is required.