Dear MRtrix experts,
I am trying to get eddy cuda to work in my processing pipeline. I am using a virtual machine with a linux environment, via ubuntu 16.04 and have installed cuda 9.1. Upon checking this, cuda is here: I also have FSL version 6.0 and MRtrix3 version 3.0.2 installed.
So, running FSL’s command eddy_cuda9.1 is working fine, and there is a symlink on ‘eddy_cuda’, which points to eddy_cuda9.1. However, upon running dwifslpreproc, eddy cuda fails, and it proceeds to run eddy_openmp instead.
If it helps, I have also installed MRtrix3 via anaconda, as shown here: https://www.mrtrix.org/download/linux-anaconda/. Checking my $PATH variable shows that fsl and mrtrix3 are there -
What can I do to get eddy cuda to work on dwifslpreproc?