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chore!: Support only snakemake >=8.24.1 #328

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chore!: Support only snakemake >=8.24.1

chore!: Support only snakemake >=8.24.1 #328

Workflow file for this run

.github/workflows/main.yml at afb8503
---
name: Tests
on:
push:
branches: [master, development]
pull_request:
branches: [master, development]
jobs:
docs:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v4
- name: install micromamba
uses: mamba-org/setup-micromamba@v1
with:
environment-file: docs/environment.yml
environment-name: sphinx
- name: Run sphinx
shell: bash -l {0}
run: |
cd docs && make html
Formatting:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v4
with:
fetch-depth: 0
- name: Formatting
uses: super-linter/super-linter@v6
env:
VALIDATE_ALL_CODEBASE: false
DEFAULT_BRANCH: master
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
VALIDATE_PYTHON_FLAKE8: true
PYTHON_FLAKE8_CONFIG_FILE: .flake8
VALIDATE_JSON: true
VALIDATE_YAML: true
YAML_CONFIG_FILE: .yamllint.yml
VALIDATE_SNAKEMAKE_SNAKEFMT: true
VALIDATE_R: true
Linting:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v4
- name: Lint workflow
uses: snakemake/snakemake-github-action@v1
with:
directory: .
snakefile: workflow/Snakefile
args: "--lint --configfile config/example_config.yaml"
# 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: "--configfile config/example_config.yaml --use-conda --show-failed-logs --cores 3 --conda-cleanup-pkgs cache"
# - name: Test report
# uses: snakemake/snakemake-github-action@v1.24.0
# with:
# directory: .test
# snakefile: workflow/Snakefile
# args: "--configfile config/example_config.yaml --report report.zip"