Create caches for gin ecephys data and virtual env #123
Workflow file for this run
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 gin ecephys data and virtual env | |
| on: | |
| workflow_dispatch: | |
| push: # When someting is pushed into main this checks if caches need to re-created | |
| branches: | |
| - master | |
| schedule: | |
| - cron: "0 12 * * *" # Daily at noon UTC | |
| jobs: | |
| create-virtual-env-cache-if-missing: | |
| name: Caching virtual env | |
| runs-on: "ubuntu-latest" | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: actions/setup-python@v4 | |
| with: | |
| python-version: '3.10' | |
| - 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')}}" >> $GITHUB_OUTPUT | |
| - uses: actions/cache@v3 | |
| id: cache-venv | |
| with: | |
| path: ~/test_env | |
| key: ${{ runner.os }}-venv-${{ steps.dependencies.outputs.hash }}-${{ steps.date.outputs.date }} | |
| - name: Cache found? | |
| run: echo "Cache-hit == ${{steps.cache-venv.outputs.cache-hit == 'true'}}" | |
| - name: Create the virtual environment to be cached | |
| if: steps.cache-venv.outputs.cache-hit != 'true' | |
| run: | | |
| git config --global user.email "CI@example.com" | |
| git config --global user.name "CI Almighty" | |
| python -m venv ~/test_env # Environment used in the caching step | |
| source ~/test_env/bin/activate | |
| python -m pip install -U pip # Official recommended way | |
| # herdingspikes need numpy to installed first (!) | |
| pip install numpy==1.22 | |
| pip install -e .[test,extractors,full] | |
| create-data-cache-if-missing: | |
| name: Caching data env | |
| runs-on: "ubuntu-latest" | |
| steps: | |
| - uses: actions/setup-python@v4 | |
| with: | |
| python-version: '3.10' | |
| - name: Get current hash (SHA) of the ephy_testing_data repo | |
| id: repo_hash | |
| run: | | |
| echo "dataset_hash=$(git ls-remote https://gin.g-node.org/NeuralEnsemble/ephy_testing_data.git HEAD | cut -f1)" | |
| 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 | |
| id: cache-datasets | |
| with: | |
| path: ~/spikeinterface_datasets | |
| key: ${{ runner.os }}-datasets-${{ steps.repo_hash.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 "CI@example.com" | |
| git config --global user.name "CI Almighty" | |
| 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' | |
| run: | | |
| datalad install --recursive --get-data https://gin.g-node.org/NeuralEnsemble/ephy_testing_data | |
| - name: Move the downloaded data to the right directory | |
| if: steps.cache-datasets.outputs.cache-hit != 'true' | |
| run: | | |
| mkdir --parents --verbose ~/spikeinterface_datasets/ephy_testing_data/ | |
| mv --force ./ephy_testing_data ~/spikeinterface_datasets/ | |
| - name: Show size of the cache to assert data is downloaded | |
| run: | | |
| cd ~ | |
| pwd | |
| du -hs spikeinterface_datasets | |
| cd spikeinterface_datasets | |
| pwd | |
| ls -lh # Should show ephy_testing_data | |
| cd ephy_testing_data | |
| ls -lh |