Create caches for ephy_testing_data and conda env #148
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| name: Create caches for ephy_testing_data and conda env | |
| on: | |
| workflow_dispatch: # Workflow can be triggered manually via GH actions webinterface | |
| push: # When something is pushed into master this checks if caches need to re-created | |
| branches: | |
| - master | |
| schedule: | |
| - cron: "0 12 * * *" # Daily at noon UTC | |
| jobs: | |
| create-conda-env-cache-if-missing: | |
| name: Caching conda env | |
| runs-on: "ubuntu-latest" | |
| strategy: | |
| fail-fast: true | |
| defaults: | |
| # by default run in bash mode (required for conda usage) | |
| run: | |
| shell: bash -l {0} | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Get current year-month | |
| id: date | |
| run: | | |
| echo "date=$(date +'%Y-%m')" >> $GITHUB_OUTPUT | |
| - name: Get current dependencies hash | |
| id: dependencies | |
| run: | | |
| echo "hash=${{hashFiles('**/pyproject.toml', '**/environment_testing.yml')}}" >> $GITHUB_OUTPUT | |
| - uses: actions/cache@v3 | |
| # the cache for python package is reset: | |
| # * every month | |
| # * when package dependencies change | |
| id: cache-conda-env | |
| with: | |
| path: /usr/share/miniconda/envs/neo-test-env | |
| key: ${{ runner.os }}-conda-env-${{ steps.dependencies.outputs.hash }}-${{ steps.date.outputs.date }} | |
| - name: Cache found? | |
| run: echo "Cache-hit == ${{steps.cache-conda-env.outputs.cache-hit == 'true'}}" | |
| # activate environment if not restored from cache | |
| - uses: conda-incubator/setup-miniconda@v2.2.0 | |
| if: steps.cache-conda-env.outputs.cache-hit != 'true' | |
| with: | |
| activate-environment: neo-test-env | |
| environment-file: environment_testing.yml | |
| python-version: 3.9 | |
| - name: Create the conda environment to be cached | |
| if: steps.cache-conda-env.outputs.cache-hit != 'true' | |
| # create conda env, configure git and install pip, neo and test dependencies from master | |
| # for PRs that change dependencies, this environment will be updated in the test workflow | |
| run: | | |
| git config --global user.email "neo_ci@fake_mail.com" | |
| git config --global user.name "neo CI" | |
| python -m pip install -U pip # Official recommended way | |
| pip install --upgrade -e .[test] | |
| create-data-cache-if-missing: | |
| name: Caching data env | |
| runs-on: "ubuntu-latest" | |
| steps: | |
| - name: Get current hash (SHA) of the ephy_testing_data repo | |
| id: ephy_testing_data | |
| run: | | |
| echo "dataset_hash=$(git ls-remote https://gin.g-node.org/NeuralEnsemble/ephy_testing_data.git HEAD | cut -f1)" >> $GITHUB_OUTPUT | |
| - uses: actions/cache@v3 | |
| # Loading cache of ephys_testing_dataset | |
| id: cache-datasets | |
| with: | |
| path: ~/ephy_testing_data | |
| key: ${{ runner.os }}-datasets-${{ steps.ephy_testing_data.outputs.dataset_hash }} | |
| - name: Cache found? | |
| run: echo "Cache-hit == ${{steps.cache-datasets.outputs.cache-hit == 'true'}}" | |
| - name: Installing datalad and git-annex | |
| if: steps.cache-datasets.outputs.cache-hit != 'true' | |
| run: | | |
| git config --global user.email "neo_ci@fake_mail.com" | |
| git config --global user.name "neo CI" | |
| python -m pip install -U pip # Official recommended way | |
| pip install datalad-installer | |
| datalad-installer --sudo ok git-annex --method datalad/packages | |
| pip install datalad | |
| git config --global filter.annex.process "git-annex filter-process" # recommended for efficiency | |
| - name: Download dataset | |
| if: steps.cache-datasets.outputs.cache-hit != 'true' | |
| # Download repository and also fetch data | |
| run: | | |
| cd ~ | |
| datalad install --recursive --get-data https://gin.g-node.org/NeuralEnsemble/ephy_testing_data | |
| - name: Show size of the cache to assert data is downloaded | |
| run: | | |
| cd ~ | |
| pwd | |
| du -hs ephy_testing_data | |
| cd ephy_testing_data | |
| pwd |