Create caches for ephy_testing_data and conda env #22
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| 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 == ${{steps.cache-conda-env.outputs.cache-hit == 'true'}}" | |
| # activate environment if not restored from cache | |
| - uses: conda-incubator/[email protected] | |
| if: steps.cache-conda-env.outputs.cache-hit != 'true' | |
| with: | |
| activate-environment: neo-test-env | |
| environment-file: environment_testing.yml | |
| python-version: 3.9 | |
| - name: Create the conda environment to be cached | |
| if: steps.cache-conda-env.outputs.cache-hit != 'true' | |
| # create conda env, configure git and install pip, neo and test dependencies from master | |
| # for PRs that change dependencies, this environment will be updated in the test workflow | |
| run: | | |
| git config --global user.email "neo_ci@fake_mail.com" | |
| git config --global user.name "neo CI" | |
| python -m pip install -U pip # Official recommended way | |
| pip install --upgrade -e .[test] | |
| create-data-cache-if-missing: | |
| name: Caching data env | |
| runs-on: "ubuntu-latest" | |
| steps: | |
| - name: Get current hash (SHA) of the ephy_testing_data repo | |
| id: ephy_testing_data | |
| run: | | |
| echo "dataset_hash=$(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 |