build

Merge pull request #3 from NBISweden/H25 #8

	name: build

	on:
	pull_request:
	branches:
	- main
	workflow_dispatch:
	push:
	branches:
	- 'main'
	- 'test-build'

	jobs:
	build:
	name: Build site
	runs-on: ubuntu-latest
	timeout-minutes: 60
	permissions:
	contents: write
	defaults:
	run:
	shell: bash -l {0}
	steps:
	- name: Cancel Previous Runs
	if: ${{ !env.ACT }}
	uses: styfle/[email protected]
	with:
	access_token: ${{ github.token }}

	- name: Checkout repository
	uses: actions/checkout@v4

	- name: Install micromamba
	uses: mamba-org/setup-micromamba@v1
	with:
	micromamba-version: "1.3.1-0"
	environment-file: environment.yml
	environment-name: pgip2024
	init-shell: bash
	cache-environment: true

	- name: Setup Quarto
	uses: quarto-dev/quarto-actions/setup@v2
	with:
	version: 1.5.57

	- run: \|
	quarto --version

	- name: Add miniconda path
	run: \|
	echo "$(dirname $(which R))" >> $GITHUB_PATH
	quarto check

	- name: Render project without publishing
	uses: quarto-dev/quarto-actions/render@v2
	if: ${{ github.event_name == 'pull_request' }}
	with:
	path: .

	- name: Publish to GitHub Pages
	uses: quarto-dev/quarto-actions/publish@v2
	if: ${{ github.ref_name == 'main' \|\| github.ref_name == 'test-build' }}
	with:
	target: gh-pages
	path: .
	env:
	GITHUB_TOKEN: ${{ secrets.CI_GITHUB_TOKEN }}

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