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finnlennartsson / kpum_noddi

repo for processing of DKI/NODDI data for preterm project at KPUM
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MRTrix3's `dwibiascorrect` is not working for some reason. #28

Closed finnlennartsson closed 1 year ago

finnlennartsson commented 1 year ago

MRTrix3's dwibiascorrect is not working for some reason.

https://github.com/finnlennartsson/kpum_noddi/blob/ec484fee2195be9acda297161d790a0f63a3db6a/shell/dmri_preprocess.sh#L355-L370

finnlennartsson commented 1 year ago

Seems like it could be the conda installations of ANTs and MRTrix3

Built both from source and now it seems to work on the system.

ANTs - installed by building from source https://github.com/ANTsX/ANTs/wiki/Compiling-ANTs-on-Linux-and-Mac-OS and used https://github.com/cookpa/antsInstallExample

MRtrix3 installed by building from source. See https://mrtrix.readthedocs.io/en/latest/installation/build_from_source.html

finnlennartsson commented 1 year ago

Working when installing latest version of ANTs

So now activated again https://github.com/finnlennartsson/kpum_noddi/blob/7e093eb6793244f0d84801fd64c053b397aa0137/shell/dmri_preprocess.sh#L374-L387