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List of errors discovered when creating a pipeline. #41

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11 of 12 tasks
gagnonanthony opened this issue Nov 21, 2024 · 0 comments · Fixed by #48
Open
11 of 12 tasks

List of errors discovered when creating a pipeline. #41

gagnonanthony opened this issue Nov 21, 2024 · 0 comments · Fixed by #48
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gagnonanthony commented Nov 21, 2024

While creating nf-pediatric, I encountered minor typos/errors in the module. I place a list here in case someone wants to fix them before I do:

  • Add a touch bounding_box.pkl in the stub of betcrop/cropvolume. (@arnaudbore)
  • For some reason, freesurfer/synthbet:1.6.0 did not work on both Mac and Linux, I changed it to freesurfer/freesurfer:7.4.1, and it worked fine. (@ThoumyreStanislas) It also works with freesurfer/synthstrip:1.5.
  • Add automatic shell detection and selection in image/powderaverage. (@gagnonanthony)
  • Fix the first_suffix argument in image/resample. (@gagnonanthony)
  • Add the correct prefix_topup in the stub section in the topup module. (@Manonedde)
  • Remove the .py extension in N4BiasFieldCorrection in the stub of preproc/n4. (@arnaudbore)
  • Update reconst/frf to the correct scil version. (@ThoumyreStanislas)
  • Fix ANTs version in registration/anattodwi. (@gagnonanthony)
  • Split affine and warp in registration/antsapplytransforms + fix version. (@gagnonanthony)
  • Update segmentation/freesurferseg versions. (@gagnonanthony)
  • Update segmentation/fsreconall versions. (@gagnonanthony)
  • Update versions in utils/extractb0. (@Manonedde)
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