search

MICA-MNI / micapipe

micapipe from the Multimodal imaging and connectome analysis lab (http://mica-mni.github.io) at the Montreal Neurological Institute. Read The Docs documentation below
http://micapipe.readthedocs.io
GNU General Public License v3.0
80 stars 27 forks source link

autoTracts bundled with SC fails #80

Closed araikes closed 1 year ago

araikes commented 1 year ago

When running -SC, the -autoTract option requires the FA map. However, 03_SC.sh still searches for the FA map as a .mif file, whereas this was converted to a .nii.gz file in v0.1.5.

https://github.com/MICA-MNI/micapipe/blob/d9c730d1b0b3f6c21c770d12dd9c3dba94d479f0/functions/03_SC.sh#L69

Edit:

The autoTract section of the code also references an undefined variable called $fa_niigz https://github.com/MICA-MNI/micapipe/blob/d9c730d1b0b3f6c21c770d12dd9c3dba94d479f0/functions/03_SC.sh#L262

rcruces commented 1 year ago

Hello, this issue was adressed and tested on the latest version release v0.2.1, which is already tagged on the github repository bbc4eabeea4fd83b8f28adb743d6b6da212af2ec and online on the dockerhub dockerhub.

We thank you for your comments