Replace setup-miniconda by setup-micromamba GH action (#227) #347
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: CI (Conda/PyTest) | |
| on: | |
| push: | |
| paths-ignore: | |
| - 'README.md' | |
| pull_request: | |
| types: | |
| - opened | |
| - edited | |
| - synchronize | |
| paths-ignore: | |
| - 'README.md' | |
| jobs: | |
| build: | |
| name: Test (${{ matrix.os }}, ${{ matrix.python-version }}) | |
| runs-on: ${{ matrix.os }} | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| strategy: | |
| fail-fast: true | |
| matrix: | |
| os: ['ubuntu-latest', 'macos-latest'] | |
| python-version: ['3.10'] # ['3.8', '3.10'] | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - uses: mamba-org/setup-micromamba@v1 | |
| with: | |
| micromamba-version: 'latest' | |
| environment-name: 'bakta' | |
| environment-file: 'environment.yml' | |
| create-args: python=${{ matrix.python-version }} | |
| condarc: | | |
| channels: | |
| - conda-forge | |
| - bioconda | |
| init-shell: bash | |
| cache-environment: true | |
| cache-downloads: true | |
| post-cleanup: 'all' | |
| # - name: Install DeepSig | |
| # if: ${{ matrix.os == 'ubuntu-latest' && matrix.python-version == '3.8'}} | |
| # run: mamba install numpy=1.23 keras=2.4.3 tensorflow=2.2.0 chardet deepsig | |
| - name: Install PyTest | |
| run: micromamba install pytest | |
| shell: bash -l {0} | |
| - name: Mamba info | |
| run: | | |
| micromamba info | |
| micromamba list | |
| printenv | sort | |
| shell: bash -l {0} | |
| - name: Run PyTest | |
| if: ${{ matrix.os == 'ubuntu-latest' || matrix.python-version == '3.10'}} | |
| run: pytest | |
| shell: bash -l {0} |