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lines changed Original file line number Diff line number Diff line change 8989 for nb in part1_prerequisites part2_searching_basics part3_exploring_cohorts; do
9090 docker run -d --name colab -v "$(pwd):/content" -e GOOGLE_APPLICATION_CREDENTIALS="${{ env.GOOGLE_APPLICATION_CREDENTIALS }}" imagingdatacommons/idc-testing-colab:latest
9191 docker exec -t colab /bin/bash -c "pip install papermill==2.4.0"
92- docker exec -t colab /bin/bash -c "set -o xtrace && set -o errexit && set -o pipefail && set -o nounset && set +o errexit && cd content/ && papermill /content/notebooks/getting_started/${nb}.ipynb /content/test/outputs/${nb}_papermill_output.ipynb && set -o errexit && ls -A"
92+ docker exec -t colab /bin/bash -c "set -o xtrace && set -o errexit && set -o pipefail && set -o nounset && set +o errexit && cd content/ && papermill --log-level='DEBUG' /content/notebooks/getting_started/${nb}.ipynb /content/test/outputs/${nb}_papermill_output.ipynb && set -o errexit && ls -A"
9393 #docker exec -t colab /bin/bash -c "jupyter nbconvert --to html --ExtractOutputPreprocessor.enabled=False /content/test/outputs/output_${nb}.ipynb"
9494 docker stop colab
9595 docker rm colab
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