Guide Notebooks Regression #9
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: | |
jobid: ${{ steps.sbatch.jobid }} | |
steps: | |
- name: sbatch | |
id: sbatch | |
run: | | |
jobid=$(sbatch \ | |
-t 100 \ | |
--mem 16G \ | |
-p gablab \ | |
-D ${HOME}/actions-runner \ | |
run.sh | cut -d ' ' -f 4) | |
echo "Submitted batch job with id ${jobid}" | |
echo "Waiting for job to start" | |
while [ 1 ]; do | |
node=$(squeue --noheader -j ${jobid} -o "%N") | |
echo "Found node ${node}" | |
if [ -z ${node} ]; then | |
sleep 1; | |
else | |
break; | |
fi | |
done | |
echo "jobid=${jobid}" >> "$GITHUB_OUTPUT" | |
guide-notebooks-regression: | |
needs: start-node-runner | |
runs-on: [self-hosted, nobrainer-ci-self-hosted-runner] | |
steps: | |
- 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: | | |
cd ${{ github.workspace }} | |
for notebook in $(ls guide/[0-9][0-9]-*.ipynb); do | |
singularity exec \ | |
--nv -B /om \ | |
${HOME}/img/tensorflow_latest-gpu.sif \ | |
./run-in-env.sh \ | |
jupyter nbconvert \ | |
--execute ${notebook} \ | |
--to markdown \ | |
--stdout | |
done | |
shutdown-node-runner: | |
needs: start-node-runner | |
runs-on: [self-hosted, nobrainer-self-hosted-ci] | |
steps: | |
- name: cleanup | |
env: | |
jobid: ${{needs.start-node-runner.outputs.jobid}} | |
run: | | |
scancel ${jobid} |