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211d839 · Dec 21, 2024

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docker

Docker instructions

Building the docker image

Download the required softwares (freesurfer, ANTs and anaconda).

bash download.sh

Since we only need mri_synthseg and mri_synthstrip commands from freesurfer, we can filter out all the other binaries and models. Run the following as root:

bash reduce-freesurfer.sh

Finally, build the Docker container:

docker build -t lemuelpuglisi/turboprep .

This is a cpu version of turboprep. Hopefully, a gpu version will come next. If you need to preprocess a lot of data, I strongly suggest to run the local version of turboprep (see the main README).