DeepRVAT Pipeline tests 🧬🧪💻🧑‍🔬 #9

	name: DeepRVAT Pipeline tests
	run-name: DeepRVAT Pipeline tests 🧬🧪💻🧑‍🔬
	on: [ push ]

	jobs:
	Smoke-RunTraining:
	uses: ./.github/workflows/run-pipeline.yml
	with:
	environment_file: ./deeprvat_env_no_gpu.yml
	name: Smoke-RunTraining
	pipeline_cmd: \|
	python -m snakemake -n -j 2 --directory ./example \
	--snakefile ./pipelines/run_training.snakefile --show-failed-logs


	# Pipeline-Tests-RunTraining:
	# runs-on: ubuntu-latest
	# needs: Smoke-RunTraining
	# steps:
	# - name: Check out repository code
	# uses: actions/checkout@v4
	# - uses: mamba-org/[email protected]
	# with:
	# environment-name: deeprvat-gh-action
	# environment-file: ${{ github.workspace }}/deeprvat_env_no_gpu.yml
	# cache-environment: true
	# cache-downloads: true
	# - name: Install DeepRVAT
	# run: pip install -e ${{ github.workspace }}
	# shell: micromamba-shell {0}
	# # There are no GPUs on the gh worker, so we disable it in the config
	# - name: Update config to use no gpus
	# run: "sed -i 's/gpus: 1/gpus: 0/' ${{ github.workspace }}/example/config.yaml"
	# shell: bash -el {0}
	# - name: Run run_training pipeline
	# run: \|
	# python -m snakemake -j 2 --directory ${{ github.workspace }}/example \
	# --snakefile ${{ github.workspace }}/pipelines/run_training.snakefile --show-failed-logs -F
	# shell: micromamba-shell {0}

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