Reduce MultiQC memory consumption #805

	name: Fix linting
	on:
	issue_comment:
	types: [created]

	jobs:
	fix_linting:
	runs-on: ubuntu-latest
	# Only run if comment is on a PR with the main repo, and if it contains the magic keywords
	if: >
	github.repository_owner == 'MultiQC' &&
	github.event.issue.pull_request &&
	startsWith(github.event.comment.body, '@multiqc-bot fix linting')

	steps:
	- uses: actions/checkout@v4
	with:
	token: ${{ secrets.MQC_BOT_GITHUB_TOKEN }}

	# Action runs on the issue comment, so we don't get the PR by default.
	# Use the GitHub CLI to check out the PR:
	- name: Checkout Pull Request
	env:
	GITHUB_TOKEN: ${{ secrets.MQC_BOT_GITHUB_TOKEN }}
	run: gh pr checkout ${{ github.event.issue.number }}

	- uses: actions/setup-python@v5

	- name: Install pre-commit
	run: \|
	python -m pip install --upgrade pip
	pip install pre-commit
	pre-commit install

	- name: Run pre-commit
	run: \|
	pre-commit run --all-files \|\| true

	- name: Check if any files changed
	run: \|
	git diff --exit-code \|\| echo "changed=YES" >> $GITHUB_ENV
	echo "Files changed: ${{ env.changed }}"

	- name: Commit and push changes
	if: env.changed == 'YES'
	run: \|
	git config user.name 'MultiQC Bot'
	git config user.email 'multiqc-bot@seqera.io'
	git config push.default upstream
	git add .
	git status
	git commit -m "[automated] Fix code linting"
	git push

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