Guide Notebooks Regression #4
Workflow file for this run
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| name: Guide Notebooks Regression | |
| run-name: Guide Notebooks Regression | |
| on: [push] | |
| jobs: | |
| start-node-runner: | |
| runs-on: [self-hosted, nobrainer-self-hosted-ci] | |
| outputs: | |
| label: ${{ steps.srun.node_name }} | |
| steps: | |
| - name: sbatch | |
| run: | | |
| cat<<EOF > start_node_runner.sh | |
| #!/bin/bash | |
| set -ex | |
| cd | |
| ./run.sh | |
| EOF | |
| jobid=$(sbatch -t 10 --mem 16G -p gablab -D ${HOME}/actions-runner run.sh | cut -d ' ' -f 4) | |
| while [ 1 ]; do | |
| node=$(squeue --noheader -j ${jobid} -o "%N") | |
| if [ -z ${node} ]; then | |
| sleep 1; | |
| else | |
| break; | |
| fi | |
| done | |
| guide-notebooks-regression: | |
| needs: start-node-runner | |
| runs-on: [self-hosted, nobrainer-self-hosted-ci-runner] | |
| steps: | |
| - run: echo "automatically triggered by a ${{ github.event_name }} event" | |
| - run: echo "running on a ${{ runner.os }} server hosted by github" | |
| - name: clone | |
| uses: actions/checkout@v3 | |
| - name: install | |
| run: | | |
| cd ${{ github.workspace }} | |
| python -m venv env | |
| source env/bin/activate | |
| pip install --upgrade pip | |
| pip install jupyter | |
| pip install -e . | |
| nobrainer info | |
| - name: run | |
| run: | | |
| for notebook in $(ls guide/[0-9][0-9]-*.ipynb); do | |
| singularity exec \ | |
| --nv -B /om \ | |
| ${HOME}/img/tensorflow_latest-gpu.sif \ | |
| ./run.sh \ | |
| jupyter nbconvert \ | |
| --execute ${notebook} \ | |
| --to markdown \ | |
| --stdout | |
| done |