.gitlab-ci.yml

# Specify stages in this CI workflow
stages:
  - build
  - test
  - deploy

# List variables and they can be called by the variable names
# variables:
  # GITLAB_BUILD_ENV_DOCKER_IMAGE: docker-registry.ebrains.eu/tc/ebrains-spack-build-env/gitlab_runners_nfs:gitlab_runners_nfs_23.06
  # SYSTEMNAME: ebrainslab

run_notebooks:
  stage: test
  tags:
    # Add tags for runner to select runners that meet the requirement
    - docker-runner

  before_script:
    # - cat /mnt/ebrains_env/ebrains-23.09/bin/load_env.sh
    - . /mnt/ebrains_env/ebrains-23.09/bin/load_env.sh


  script:
    - echo "Starting testing..."
    # List all kernels
    # - jupyter kernelspec list
    - echo "Testing multi-area-model.ipynb..."
    # Replace all ebrains-23.09 with python3 as the kernel ebrains-23.09 is now actually named as python3
    - sed -i -e "s/ebrains-23.09/python3/" multi-area-model.ipynb
    # Convert jupyter notebook to python file and execute it
    - jupyter nbconvert --to notebook --execute ./multi-area-model.ipynb
    - echo "Testing M2E_statistical_test.ipynb..."
    # Replace all ebrains-23.09 with python3 as the kernel ebrains-23.09 is now actually named as python3
    - sed -i -e "s/ebrains-23.09/python3/" M2E_statistical_test.ipynb
    # Convert jupyter notebook to python file and execute it
    - jupyter nbconvert --to notebook --execute ./M2E_statistical_test.ipynb
    - echo "Testing are finished and passed!"