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ENH: Outsource apply() from transform objects #195

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merged 16 commits into from
May 17, 2024
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jmarabotto
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@jmarabotto jmarabotto commented Apr 5, 2024

I have joined CHUV (Lausanne, Switzerland) for a 5 month placement and am working with Oscar Esteban on this project. We worked through this problem together as an example of how I can contribute and resolve issues, as I am somewhat new to GitHub. Eventually, this Resolves #192 - but for now, this acts as an example and further changes are needed :)

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effigies commented Apr 5, 2024

I assume this is intended to close #192? If so, please add "Resolves #192" or similar to your top post.

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Okay, with #197 out of the way we can focus on finalizing this. @effigies -- I'm working with Julien on this one, I will walk him through the process of preparing the PR we will let you know when this is ready for you to eyeball it.

@jmarabotto jmarabotto marked this pull request as ready for review May 10, 2024 09:23
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Let's finalize this today.

else None
)

for t, xfm_t in enumerate(self):
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I've been holding on this one - the new implementation is 4D, while the old implementation was 3D+t (meaning that you could not resample off-gried on the fourth dimension).

We should make sure we meet today @effigies, @jmarabotto and discuss this.

cc/ @sgiavasis who may be interested in learning more.

nitransforms/nonlinear.py Outdated Show resolved Hide resolved
nitransforms/nonlinear.py Outdated Show resolved Hide resolved
@oesteban oesteban changed the title enh: outsource the apply function ENH: Outsource apply() from transform objects May 16, 2024
jmarabotto and others added 13 commits May 16, 2024 08:14
outsourced Apply(); fixed resampled.py (line 101); implemented np.tensordor to _apply_affine() in main.py (line 287). Left to do: fix test_linear RunTime error (line 358)
Outsourced apply, test_linear.py successful
Apply function offsourced. Tests:  139 passed, 163 Skipped, 15 Warnings
nitransforms/nonlinear.py Outdated Show resolved Hide resolved
@oesteban oesteban merged commit 8a18581 into nipy:master May 17, 2024
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Offsource .apply() as an independent operation
3 participants