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Removing the code for AMICO. Everything (including checkout 635fb4e) has been included in DATA_public.tar.gz

Removing compilation of eddy_cuda and probtrackx2_gpu (both are included in bb_FSL.tar.gz) and adding the downloading and installation of BrainSuite

Removing the references to BrainSuite (now all that is in DATA_private.tar.gz). Also, download bb_FSL.tar.gz and DATA_public.tar.gz from WIN website.

Back to base, as we will recompile externally, and include executables from an external archive (like e.g. bb_FSL.tar.gz)

Use NVIDIA cuda-devel image as base, so we don't need to install CUDA by hand,...

See merge request !1

Paul McCarthy authored Sep 07, 2021 and Paul McCarthy committed Sep 09, 2021

Clobber ownership of freesurfer installation - can otherwise encounter errors when pulling/loading docker image. Remove FSL re-compile

Paul McCarthy authored Sep 06, 2021 and Paul McCarthy committed Sep 09, 2021

Use NVIDIA cuda-devel image as base, so we don't need to install CUDA by hand, and so we have nvcc to [re-]compile stuff