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pre-commit.yml
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name: pre-commit
on:
push:
branches-ignore:
- 'main'
pull_request:
types: [opened, synchronize, reopened, ready_for_review]
permissions:
contents: write
concurrency:
group: ${{ github.workflow }}-${{ github.ref }}
cancel-in-progress: true
jobs:
pre-commit:
runs-on: ubuntu-latest
container:
image: singlecellopenproblems/openproblems-github-actions:latest
options: --user root
if: >-
!endsWith(github.event.head_commit.message, '# ci skip')
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 0
- name: Install system dependencies
if: runner.os == 'Linux'
run: |
sudo apt-get update -qq || (sudo rm /etc/apt/sources.list.d/* && sudo apt-get update -yqq)
sudo apt-get install -y --no-install-recommends libcurl4-openssl-dev
- name: Set up environment
run: |
echo "LINUX_VERSION=$(uname -a)" >> $GITHUB_ENV
echo "R_VERSION=$(R --version | head -n 1)" >> $GITHUB_ENV
- name: Cache R packages
uses: actions/cache@v3
if: startsWith(runner.os, 'Linux')
with:
path: /usr/local/lib/R/site-library
key: precommit-${{env.LINUX_VERSION}}-${{env.R_VERSION}}-renv-${{ hashFiles('./docker/openproblems-github-actions/r_requirements.txt') }}-
restore-keys: |
precommit-${{env.LINUX_VERSION}}-${{env.R_VERSION}}-renv-
- name: Install R packages
run: |
renv::restore()
source("./scripts/install_renv.R")
install_renv("./docker/openproblems-github-actions/r_requirements.txt")
shell: Rscript {0}
- name: Cache pre-commit
uses: actions/cache@v3
with:
path: ~/.cache/pre-commit
key: pre-commit-${{ hashFiles('.pre-commit-config.yaml') }}-
- name: Run pre-commit
id: precommit
uses: pre-commit/action@v3.0.0
continue-on-error: true
- name: Commit files
if: steps.precommit.outcome == 'failure' && startsWith(github.ref, 'refs/heads')
run: |
if [[ `git status --porcelain --untracked-files=no` ]]; then
git config --local user.email "41898282+github-actions[bot]@users.noreply.github.com"
git config --local user.name "github-actions[bot]"
git checkout -- .github/workflows
git commit -m "pre-commit" -a
fi
shell: bash -e {0}
- name: Push changes
if: steps.precommit.outcome == 'failure' && startsWith(github.ref, 'refs/heads')
uses: ad-m/github-push-action@master
with:
github_token: ${{ secrets.GITHUB_TOKEN }}
branch: ${{ github.ref }}
- name: Check pre-commit
if: steps.precommit.outcome == 'failure'
uses: pre-commit/action@v3.0.0