FastSurfer Docker Image Build #19

	# This workflow will install Python dependencies, run tests and lint with a single version of Python
	# For more information see: https://docs.github.com/en/actions/automating-builds-and-tests/building-and-testing-python

	name: FastSurfer Docker Image Build

	on:
	# push:
	# branches: [ "dev" ]
	# pull_request:
	# branches: [ "dev" ]
	# Manual
	workflow_dispatch:

	jobs:
	build-gpu-image:
	runs-on: dirac

	steps:
	# Checkout repo
	- uses: actions/checkout@v4

	# Set up Python 3.10
	- name: Set up Python 3.10
	uses: actions/setup-python@v3
	with:
	python-version: "3.10"

	- name: Build GPU FastSurfer Image
	run: \|
	PYTHONPATH=$PYTHONPATH
	python3 Docker/build.py --device cuda --tag my_fastsurfer:cuda

	run-fastsurfer:
	runs-on: dirac
	needs: build-gpu-image

	steps:
	- name: Run FastSurfer
	run: \|
	docker run --gpus all -v $RUNNER_FS_MRI_DATA:/data \
	-v $RUNNER_FS_OUTPUT:/output \
	-v $RUNNER_FS_LICENSE:/fs_license \
	--rm --user $(id -u):$(id -g) my_fastsurfer:cuda \
	--fs_license /fs_license/.license \
	--t1 /data/subjectx/orig.mgz \
	--sid subjectx --sd /output \
	--parallel

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