sct_dmri_moco - cropped vs non-cropped image

sct-pipeline / spine-park

Pipeline for multicontrast analysis in PD patients

MIT License

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Open valosekj opened 3 days ago

valosekj commented 3 days ago

I'm wondering about the following thing:

on line 275, the DWI image is cropped (the output is "${file_dwi}"_crop.nii.gz)
but then, on line 277, motion correction is done on the original, non-cropped image (${file_dwi}.nii.gz)

Isn't file_dwi="${file_dwi}_crop" missing between lines 275 and 277?

jcohenadad commented 3 days ago

Amazing. Good catch @valosekj and thank you for reporting it!!

jcohenadad commented 3 days ago

I fixed the issue in https://github.com/sct-pipeline/spine-park/commit/84ba26feb1c2094e956cc43d808bd857d156d934, can you make sure it works fine @Kaonashi22 and if so we can close the issue

Kaonashi22 commented 3 days ago

I'm re-running, I'll let you know how it works!