Update pip formatting #329
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: Install | |
| on: [push, pull_request] | |
| jobs: | |
| skip_duplicate: | |
| permissions: | |
| actions: write | |
| contents: read | |
| runs-on: ubuntu-latest | |
| outputs: | |
| should_skip: ${{ steps.skip_check.outputs.should_skip }} | |
| steps: | |
| - id: skip_check | |
| uses: fkirc/[email protected] | |
| with: | |
| cancel_others: 'true' | |
| concurrent_skipping: 'same_content_newer' | |
| Install: | |
| needs: skip_duplicate | |
| if: ${{ needs.skip_duplicate.outputs.should_skip != 'true' }} | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v3 | |
| - name: Setup mamba | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| mamba-version: "*" | |
| channels: conda-forge,bioconda,defaults | |
| auto-activate-base: true | |
| activate-environment: "" | |
| - name: Install Snakemake 7.32 | |
| run: | | |
| pip install 'snakemake==7.32.4' 'pulp<2.8' | |
| - name: Create environments | |
| run: | | |
| snakemake --snakefile workflow/Snakefile --directory .test --configfile config/config.yaml .test/targets.yaml --conda-create-envs-only --use-conda -c1 | |
| Dry_run: | |
| needs: skip_duplicate | |
| if: ${{ needs.skip_duplicate.outputs.should_skip != 'true' }} | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v3 | |
| - name: Setup mamba | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| mamba-version: "*" | |
| channels: conda-forge,bioconda,defaults | |
| auto-activate-base: true | |
| activate-environment: "" | |
| - name: Install Snakemake 7.32 | |
| run: | | |
| pip install 'snakemake==7.32.4' 'pulp<2.8' | |
| - name: Dry run | |
| run: | | |
| snakemake --snakefile workflow/Snakefile --directory .test --configfile config/config.yaml .test/targets.yaml --dry-run |