How to Run FastSurfer on Windows with Docker
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NVIDIA Graphics Driver, WSL2 and Docker for Windows Desktop must be installed to follow. Download Test NIfTI File I mounted C:\nsimg\fastsurfer\data on the docker container /data. The file will be located in /data/SubjectX in the docker container. curl -L https://github.com/neurolabusc/niivue-images/raw/main/chris_t1.nii.gz > C:\nsimg\fastsurfer\data\subjectX\chris_t1.nii.gz Run FastSurfer Docker container with GPU Instead of Linux user ID and group, you can enter numbers respectively. See this page for the rest of commands. I arbitrarily set it from --user$(id-u):$(id-g) to ---user 1000:1000 for running on Windows. docker run --gpus all -v C:\nsimg\fastsurfer\data:/data -v C:\nsimg\fastsurfer\output:/output -v C:\nsimg\fastsurfer\license:/fs_license --rm --user 1000:1000 deepmi/fastsurfer:latest --fs_license /fs_license/license.txt --t1 /data/subjectX/chris_t1.nii.gz --sid subjectX --sd /output