Draft MEDIC dynamic distortion correction method (second attempt) #356
Workflow file for this run
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| name: Build & update docs | |
| on: | |
| push: | |
| branches: [ 'doc/*', 'docs/*', master, "maint/*" ] | |
| tags: [ '*' ] | |
| pull_request: | |
| branches: [ master, 'maint/*' ] | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| build: | |
| if: ${{ github.event_name != 'pull_request' || !contains(github.event.head_commit.message, '[skip ci]') }} | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| ssh-key: "${{ secrets.NIPREPS_DEPLOY }}" | |
| fetch-depth: 0 | |
| - name: Determine current branch/tag name & set-up git author | |
| run: | | |
| if [[ "$GITHUB_REF" == refs/tags/* ]]; then | |
| CURBRANCH=${GITHUB_REF##*/} | |
| elif [[ "$GITHUB_REF" == refs/pull/* ]]; then | |
| CURBRANCH=${GITHUB_REF%/*} | |
| CURBRANCH=${CURBRANCH##*/} | |
| elif [[ "$GITHUB_REF" == refs/heads/* ]]; then | |
| CURBRANCH=${GITHUB_REF##*/} | |
| fi | |
| # Remove forward slashes | |
| CURBRANCH=$( echo $CURBRANCH | sed 's+/+_+g' ) | |
| echo "Building branch/tag ${CURBRANCH:-<unkwown>}, from git ref <$GITHUB_REF>" | |
| echo "CURBRANCH=${CURBRANCH}" >> ${GITHUB_ENV} | |
| # Pacify git if we were to commit something | |
| git config user.email "[email protected]" | |
| git config user.name "NiPreps Bot" | |
| - name: Install GraphViz & pandoc | |
| run: | | |
| sudo apt-get update -y | |
| sudo apt-get install -y --no-install-recommends graphviz pandoc texlive | |
| - name: Set up Python 3 | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: 3 | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install -U build hatch hatchling pip docutils | |
| python -m pip install -r docs/requirements.txt | |
| python -m hatch version | tail -n1 | xargs | |
| - name: Pre-install template | |
| shell: python | |
| run: | | |
| from templateflow.api import get | |
| get('MNI152NLin2009cAsym', desc='brain', resolution=1, suffix='T1w') | |
| get('MNI152NLin2009cAsym', desc='fMRIPrep', resolution=2, suffix='boldref') | |
| get('MNI152NLin2009cAsym', desc='brain', resolution=2, suffix='mask') | |
| get('MNI152NLin2009cAsym', label='brain', resolution=1, suffix='probseg') | |
| - name: Build docs | |
| run: | | |
| make -C docs/ SPHINXOPTS="-W" BUILDDIR="$HOME/docs" OUTDIR="${CURBRANCH:-html}" html | |
| - name: Push created tag to gh-pages | |
| if: startsWith(github.ref, 'refs/tags/') | |
| run: | | |
| MAJOR_MINOR=${CURBRANCH%.*} | |
| if [[ "${MAJOR_MINOR}" == "" ]]; then | |
| echo "Could not identify release series" | |
| exit 1 | |
| fi | |
| git checkout -b gh-pages origin/gh-pages | |
| git rm -r ${MAJOR_MINOR}/ || true | |
| # It is fundamental that the directory does not exist at all. | |
| rm -rf ${MAJOR_MINOR} | |
| cp -r $HOME/docs/$CURBRANCH $PWD/${MAJOR_MINOR} | |
| git add ${MAJOR_MINOR} | |
| python -c "from pathlib import Path; import json; f=Path('versions.json'); d=json.loads(f.read_text()); d['tags'].append(\"${MAJOR_MINOR}\"); d['tags'] = list(sorted(set(d['tags']))); f.write_text(json.dumps(d, indent=4)); print('Updated versions.json')" | |
| git add versions.json | |
| git commit -m "rel(${CURBRANCH}): Update docs of ${MAJOR_MINOR} series" || true | |
| git push | |
| - name: Push "master" docs to gh-pages after a push to master (typically, a PR merge). | |
| if: github.ref == 'refs/heads/master' | |
| run: | | |
| if [[ "${CURBRANCH}" != "master" ]]; then | |
| echo "$CURBRANCH is not the default development branch" | |
| exit 1 | |
| fi | |
| git checkout -b gh-pages origin/gh-pages | |
| git rm -r master/ || true | |
| # It is fundamental that the directory does not exist at all. | |
| rm -rf master | |
| cp -r $HOME/docs/$CURBRANCH $PWD/master | |
| git add master | |
| git commit -am "docs(master): Update docs of development line" || true | |
| git push |