Add tutorial for tool annotation with EDAM via bio.tools #8192
Workflow file for this run
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| name: "[CI] Accessibility Linting" | |
| concurrency: | |
| group: ci-${{ github.head_ref }} | |
| cancel-in-progress: true | |
| # https://docs.github.com/en/free-pro-team@latest/actions/reference/workflow-syntax-for-github-actions#example-using-a-list-of-events | |
| on: | |
| pull_request: | |
| types: [opened, reopened, synchronize, ready_for_review] | |
| paths: | |
| - 'Gemfile.lock' | |
| - '**/*.md' | |
| - '**/*.html' | |
| - '*.yml' | |
| - '*.yaml' | |
| - 'metadata/*' | |
| - 'topics/*/images/*' | |
| - '_plugins/*' | |
| - '_plugins_dev/*' | |
| - '**/*.bib' | |
| jobs: | |
| build-site: | |
| runs-on: ubuntu-latest | |
| if: github.event_name != 'pull_request' || !github.event.pull_request.draft | |
| steps: | |
| - uses: actions/checkout@v2 | |
| with: | |
| fetch-depth: 1 | |
| # BEGIN Dependencies | |
| - uses: actions/setup-python@v2 | |
| with: | |
| python-version: '3.7' | |
| architecture: 'x64' | |
| - uses: ruby/setup-ruby@v1 | |
| with: | |
| ruby-version: "3.0" | |
| - uses: actions/setup-node@v2 | |
| with: | |
| node-version: '19' | |
| - uses: actions/cache@v2 | |
| with: | |
| path: | | |
| vendor/bundle | |
| ~/.npm | |
| key: ${{ runner.os }}-gems-${{ hashFiles('**/Gemfile.lock') }}-node-${{ hashFiles('**/package-lock.json') }} | |
| restore-keys: | | |
| ${{ runner.os }}-gems-${{ hashFiles('**/Gemfile.lock') }}-node- | |
| ${{ runner.os }}-gems- | |
| - name: Install dependencies | |
| run: | | |
| sudo apt-get install -y build-essential libxi-dev libglu1-mesa-dev libglew-dev pkg-config # for node | |
| gem install bundler | |
| bundle config path vendor/bundle | |
| bundle install --jobs 4 --retry 3 | |
| npm install | |
| bundle pristine ffi | |
| # END Dependencies | |
| - name: Build the site | |
| run: bundle exec jekyll build --strict_front_matter -d _site/training-material --trace | |
| - name: Validate all links, enforce alt text | |
| run: | | |
| bundle exec htmlproofer \ | |
| --ignore-urls "/.*localhost.*/","/.*vimeo\.com.*/","/.*gitter\.im.*/","/.*drmaa\.org.*/","/.*slides.html#.*/,/#embedded_jbrowse/","/.*videos.*.mp4.png/","/krona_(all|multisample).html/" \ | |
| --ignore-files "/.*krona.*\.html/","/.*\/files\/.*/","/.*\/node_modules\/.*/","/\/tutorials\/.*\/docker\//","/.*content.html/" \ | |
| --swap-urls "github.com/galaxyproject/training-material/tree/main:github.com/${GITHUB_REPOSITORY}/tree/${GITHUB_HEAD_REF}" \ | |
| --disable-external=true \ | |
| --enforce-https=false \ | |
| ./_site | |
| - name: Ensure no unexpected encoded HTML in output | |
| run: | | |
| ! fgrep -R 'lt;blockquote' _site | |
| - name: Ensure no unexpected jekyll in output | |
| run: | | |
| ! fgrep -R 'site.pages' _site | |
| - name: Run aXe accessibility testing on some representative URLs | |
| run: | | |
| node_modules/.bin/http-server _site/ & | |
| # We can focus AND scroll these regions. I thus disable their violation warning. | |
| # Twitter isn't our fault. Sorry. | |
| node_modules/.bin/axe --disable scrollable-region-focusable --exclude '#twitter-widget-0' --chromedriver-path /usr/bin/chromedriver \ | |
| http://localhost:8080/training-material/ \ | |
| http://localhost:8080/training-material/hall-of-fame/ \ | |
| http://localhost:8080/training-material/hall-of-fame/hexylena/ \ | |
| http://localhost:8080/training-material/topics/introduction/ \ | |
| http://localhost:8080/training-material/topics/statistics/ \ | |
| http://localhost:8080/training-material/topics/genome-annotation/ \ | |
| http://localhost:8080/training-material/topics/admin/ \ | |
| http://localhost:8080/training-material/topics/dev/ \ | |
| http://localhost:8080/training-material/topics/introduction/tutorials/galaxy-intro-short/tutorial.html \ | |
| http://localhost:8080/training-material/topics/introduction/tutorials/galaxy-intro-short/workflows/ \ | |
| http://localhost:8080/training-material/topics/admin/tutorials/ansible-galaxy/tutorial.html | |
| - name: Validate notebooks (If this fails, ask @hexylena to look at your notebook) | |
| run: | | |
| find _site | grep ipynb | xargs bundle exec ruby bin/check-valid-notebook.rb |