Merge pull request #188 from fabianegli/conda-build-maintenance #163
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| name: Conda Build | |
| on: [push, pull_request] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v4 | |
| - name: Set up Miniconda | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| activate-environment: sdrf-pipelines | |
| environment-file: environment.yml | |
| auto-activate-base: false | |
| auto-update-conda: true | |
| python-version: '3.10' | |
| channels: conda-forge,bioconda,defaults | |
| - name: Install build dependencies | |
| run: | | |
| conda install conda-build conda-verify anaconda-client | |
| - name: Build the sdrf-pipelines package | |
| run: | | |
| conda build --no-anaconda-upload --package-format .tar.bz2 recipe | |
| - name: Install the package | |
| run: | | |
| PACKAGE_PATH=$(conda build --package-format .tar.bz2 --output recipe) | |
| conda install --offline "$PACKAGE_PATH" | |
| - name: Test install | |
| run: | | |
| parse_sdrf --help | |
| - name: Test validation of SDRF file | |
| run: | | |
| parse_sdrf validate-sdrf --sdrf_file tests/data/reference/PDC000126/PDC000126.sdrf.tsv | |
| - name: Test validation of SDRF file with cache only | |
| run: | | |
| parse_sdrf validate-sdrf --sdrf_file tests/data/reference/PDC000126/PDC000126.sdrf.tsv --use_ols_cache_only |