Replace pyclesperanto with nbmorph #58
Workflow file for this run
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| name: Test EMI-mesh | |
| on: | |
| workflow_dispatch: | |
| workflow_call: | |
| pull_request: | |
| branches: ["main"] | |
| push: | |
| branches: ["main"] | |
| env: | |
| DEB_PYTHON_INSTALL_LAYOUT: deb_system | |
| defaults: | |
| run: | |
| shell: bash -el {0} | |
| jobs: | |
| test_scripts: | |
| name: test on ${{ matrix.os }} | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ubuntu-latest, windows-latest, macos-15-intel, macos-15] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install Headless Plotting Libs | |
| if: runner.os == 'Linux' | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install -y libosmesa6 libgl1 | |
| - name: Setup conda-forge | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| auto-activate-base: true | |
| activate-environment: "" | |
| miniforge-version: latest | |
| channels: conda-forge,bioconda | |
| conda-remove-defaults: "true" | |
| - name: Install snakemake | |
| run: | | |
| conda install snakemake snakemake-storage-plugin-http snakemake-executor-plugin-cluster-generic | |
| - name: Run snakemake | |
| run: | | |
| snakemake --use-conda --cores 2 -p --configfile ./config_files/test.yml |