Bug fixes #3
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name: Tests | |
on: | |
push: | |
branches: [ main ] | |
pull_request: | |
branches: [ main ] | |
jobs: | |
Formatting: | |
runs-on: ubuntu-latest | |
steps: | |
- uses: actions/checkout@v2 | |
- name: Formatting | |
uses: github/super-linter@v4 | |
env: | |
VALIDATE_ALL_CODEBASE: false | |
DEFAULT_BRANCH: main | |
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
VALIDATE_SNAKEMAKE_SNAKEFMT: true | |
Linting: | |
runs-on: ubuntu-latest | |
steps: | |
- uses: actions/checkout@v2 | |
- name: Lint workflow | |
uses: snakemake/snakemake-github-action@v1.24.0 | |
with: | |
directory: . | |
snakefile: workflow/Snakefile | |
args: "--lint" | |
Testing: | |
runs-on: ubuntu-latest | |
needs: | |
- Linting | |
- Formatting | |
steps: | |
- uses: actions/checkout@v2 | |
- name: Test workflow | |
uses: snakemake/snakemake-github-action@v1.24.0 | |
with: | |
directory: .test | |
snakefile: workflow/Snakefile | |
args: "--use-conda --show-failed-logs --cores 3 --conda-cleanup-pkgs cache --all-temp" | |
- name: Test report | |
uses: snakemake/snakemake-github-action@v1.24.0 | |
with: | |
directory: .test | |
snakefile: workflow/Snakefile | |
args: "--report report.zip" |