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name: Create New Release | ||
name: Octopus | ||
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on: | ||
push: | ||
branches: | ||
- main | ||
pull_request: | ||
branches: | ||
- main | ||
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||
# Run all tests before making a release | ||
jobs: | ||
# Only make a release if commit contains [RELEASE] | ||
check-commit-message: | ||
runs-on: ubuntu-latest | ||
outputs: | ||
contains_release: ${{ steps.commit_check.outputs.contains_release }} | ||
steps: | ||
- name: Check out code | ||
uses: actions/checkout@v4 | ||
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||
- name: Check commit message for [RELEASE] | ||
id: commit_check | ||
run: | | ||
if [[ "${{ github.event.head_commit.message }}" == *"[RELEASE]"* ]]; then | ||
echo "contains_release=true" >> $GITHUB_OUTPUT | ||
else | ||
echo "contains_release=false" >> $GITHUB_OUTPUT | ||
fi | ||
test-for-release: | ||
needs: check-commit-message | ||
if: ${{ needs.check-commit-message.outputs.contains_release == 'true' }} | ||
uses: ./.github/workflows/test.yaml | ||
tag-release: | ||
name: Update phdi init version number | ||
needs: test-for-release | ||
permissions: | ||
contents: write | ||
outputs: | ||
version: ${{ steps.get_version.outputs.version }} | ||
runs-on: ubuntu-22.04 | ||
steps: | ||
- uses: actions/checkout@v4 | ||
with: | ||
fetch-depth: "0" | ||
ref: "main" | ||
- name: Install poetry and dependencies | ||
run: | | ||
pip install poetry | ||
# update the version number in the phdi/__init.py__ file | ||
- name: Get PHDI Version | ||
id: get_version | ||
run: | | ||
VERSION_WITH_PHDI=$(poetry version) | ||
echo "version=${VERSION_WITH_PHDI:5}" >> $GITHUB_OUTPUT | ||
# Create new release tag | ||
- name: Set up Git user | ||
run: | | ||
git config --local user.email "[email protected]" | ||
git config --local user.name "GitHub Action" | ||
- name: Tag Release | ||
uses: EndBug/latest-tag@latest | ||
with: | ||
ref: ${{ steps.get_version.outputs.version }} | ||
# Generate release notes | ||
- name: Generate release notes | ||
id: release_notes | ||
env: | ||
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | ||
run: | | ||
latest_release_date=$(gh api "/repos/$GITHUB_REPOSITORY/releases?per_page=1" | jq ".[0].created_at") | ||
prs=$(gh pr list --base main --state closed --json title,number,url,closedAt -q ".[] | select(.closedAt > $latest_release_date) | select(.title | contains(\"RELEASE\") | not)") | ||
echo "# Release Notes" > release-notes.md | ||
echo "" >> release-notes.md | ||
echo "" >> release-notes.md | ||
while IFS= read -r pr; do | ||
pr_title=$(echo "$pr" | jq -r ".title") | ||
pr_number=$(echo "$pr" | jq -r ".number") | ||
pr_url=$(echo "$pr" | jq -r ".url") | ||
line_text="- $pr_title ([#$pr_number]($pr_url))" | ||
echo $line_text >> release-notes.md | ||
done < <(printf '%s' "$prs") | ||
# Create new release based upon the latest created tag | ||
- name: Create Release | ||
id: create_release | ||
uses: actions/[email protected] | ||
env: | ||
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | ||
with: | ||
tag_name: ${{ steps.get_version.outputs.version }} | ||
release_name: ${{ steps.get_version.outputs.version }} | ||
body_path: release-notes.md | ||
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||
release-to-pypi: | ||
name: Build and publish PHDI to PyPI | ||
needs: tag-release | ||
runs-on: ubuntu-latest | ||
permissions: | ||
id-token: write | ||
steps: | ||
- uses: actions/checkout@v4 | ||
with: | ||
fetch-depth: "0" | ||
ref: ${{ needs.tag-release.outputs.version }} | ||
- name: Set up Python | ||
uses: actions/setup-python@v5 | ||
with: | ||
python-version: "3.x" | ||
- name: Install pypa/build | ||
run: >- | ||
python -m | ||
pip install | ||
build | ||
--user | ||
- name: Build a binary wheel and a source tarball | ||
run: >- | ||
python -m | ||
build | ||
--sdist | ||
--wheel | ||
--outdir dist/ | ||
. | ||
- name: Publish distribution π¦ to PyPI | ||
uses: pypa/gh-action-pypi-publish@release/v1 | ||
with: | ||
password: ${{ secrets.PYPI_API_TOKEN }} | ||
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# Rebuild all containers for the new release | ||
build-containers-for-release: | ||
needs: | ||
- tag-release | ||
- release-to-pypi | ||
permissions: | ||
contents: read | ||
packages: write | ||
id-token: write | ||
uses: ./.github/workflows/buildReleaseContainers.yaml | ||
with: | ||
container-tag: ${{ needs.tag-release.outputs.version }} | ||
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# Create updated PHDI docs for the latest release | ||
generate-and-update-phdi-docs: | ||
needs: | ||
- tag-release | ||
- build-containers-for-release | ||
permissions: | ||
contents: write | ||
runs-on: ubuntu-latest | ||
steps: | ||
- uses: actions/checkout@v4 | ||
with: | ||
fetch-depth: "0" | ||
ref: ${{ needs.tag-release.outputs.version }} | ||
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||
- name: Install poetry and dependencies | ||
run: | | ||
pip install poetry | ||
poetry install | ||
- name: Generate docs and move to docs branch | ||
run: | | ||
poetry run pdoc ./phdi -o ./docs/${{ needs.tag-release.outputs.version }}/sdk | ||
- uses: actions/upload-artifact@v3 | ||
with: | ||
name: phdi-docs | ||
path: ./docs/${{ needs.tag-release.outputs.version }}/sdk | ||
env: | ||
OCTOPUS_SPACE: 'default' | ||
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# Create updated container docs for the latest release | ||
list-containers: | ||
needs: check-commit-message | ||
if: ${{ needs.check-commit-message.outputs.contains_release == 'true' }} | ||
uses: ./.github/workflows/listContainers.yaml | ||
generate-and-update-container-docs: | ||
needs: | ||
- tag-release | ||
- list-containers | ||
- generate-and-update-phdi-docs | ||
permissions: | ||
contents: write | ||
jobs: | ||
setup: | ||
runs-on: ubuntu-latest | ||
services: | ||
test-db: | ||
image: postgres:13-alpine3.16 | ||
env: | ||
POSTGRES_PASSWORD: pw | ||
POSTGRES_DB: testdb | ||
POSTGRES_USER: postgres | ||
# Set health checks to wait until postgres has started | ||
options: >- | ||
--health-cmd pg_isready | ||
--health-interval 10s | ||
--health-timeout 5s | ||
--health-retries 5 | ||
--name testdb | ||
ports: | ||
- 5432:5432 | ||
strategy: | ||
matrix: | ||
container: ${{fromJson(needs.list-containers.outputs.python-containers)}} | ||
steps: | ||
- uses: actions/checkout@v4 | ||
with: | ||
fetch-depth: "0" | ||
ref: ${{ needs.tag-release.outputs.version }} | ||
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||
- name: Update Container Documenation | ||
env: | ||
MPI_DBNAME: testdb | ||
MPI_PASSWORD: pw | ||
MPI_DB_TYPE: postgres | ||
MPI_HOST: localhost | ||
MPI_USER: postgres | ||
MPI_PORT: 5432 | ||
MPI_PATIENT_TABLE: patient | ||
MPI_PERSON_TABLE: person | ||
run: | | ||
npm i -g redoc-cli | ||
CONTAINER=${{ matrix.container }} | ||
cd $GITHUB_WORKSPACE/containers/$CONTAINER | ||
cp $GITHUB_WORKSPACE/utils/make_openapi_json.py . | ||
pip install -r requirements.txt | ||
python make_openapi_json.py | ||
redoc-cli build -o $GITHUB_WORKSPACE/docs/${{ needs.tag-release.outputs.version }}/containers/$CONTAINER.html openapi.json | ||
- uses: actions/upload-artifact@v3 | ||
with: | ||
name: container-docs | ||
path: ./docs/${{ needs.tag-release.outputs.version }}/containers | ||
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commit-docs: | ||
needs: | ||
- tag-release | ||
- generate-and-update-phdi-docs | ||
- generate-and-update-container-docs | ||
permissions: | ||
contents: write | ||
runs-on: ubuntu-latest | ||
id-token: write # Required for authentication | ||
steps: | ||
- uses: actions/checkout@v4 | ||
with: | ||
ref: docs | ||
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- name: Download phdi docs from artifacts | ||
uses: actions/download-artifact@v2 | ||
with: | ||
name: phdi-docs | ||
path: ./docs/${{ needs.tag-release.outputs.version }}/sdk | ||
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- name: Download container docs from artifacts | ||
uses: actions/download-artifact@v2 | ||
with: | ||
name: container-docs | ||
path: ./docs/${{ needs.tag-release.outputs.version }}/containers | ||
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- name: Copy to latest folder | ||
run: | | ||
rm -rf ./docs/latest | ||
mkdir -p ./docs/latest/sdk | ||
mkdir -p ./docs/latest/containers | ||
cp -r ./docs/${{ needs.tag-release.outputs.version }}/sdk/* ./docs/latest/sdk | ||
cp -r ./docs/${{ needs.tag-release.outputs.version }}/containers/* ./docs/latest/containers | ||
- name: Login to Octopus π | ||
uses: OctopusDeploy/login@v1 | ||
with: | ||
server: ${{ secrets.OCTOPUS_URL }} | ||
service_account_id: ${{ secrets.OCTOPUS_SERVICE_ACCOUNT_ID }} | ||
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- name: Commit New Documentation | ||
uses: EndBug/add-and-commit@v9 | ||
with: | ||
add: docs | ||
message: Automated update of docs for ${{ needs.tag-release.outputs.version }} release. |
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Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -0,0 +1,77 @@ | ||
name: Octopus | ||
|
||
on: | ||
push: | ||
branches: | ||
- main | ||
pull_request: | ||
branches: | ||
- main | ||
|
||
env: | ||
OCTOPUS_SPACE: 'Default' | ||
OCTOPUS_PROJECT: 'Data Ingestion Building Blocks' | ||
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jobs: | ||
release-version: | ||
permissions: | ||
contents: write | ||
outputs: | ||
version: ${{ steps.get_version.outputs.version }} | ||
runs-on: ubuntu-22.04 | ||
steps: | ||
- uses: actions/checkout@v4 | ||
with: | ||
fetch-depth: "0" | ||
ref: "main" | ||
- name: Install poetry and dependencies | ||
run: pip install poetry | ||
# update the version number in the phdi/__init.py__ file | ||
- name: Get PHDI Version | ||
id: get_version | ||
run: | | ||
VERSION_WITH_PHDI=$(poetry version) | ||
echo "version=${VERSION_WITH_PHDI:5}" >> $GITHUB_OUTPUT | ||
octopus-release: | ||
runs-on: ubuntu-latest | ||
needs: release-version | ||
permissions: | ||
id-token: write # Required for authentication | ||
outputs: | ||
release_number: ${{ steps.create_release.outputs.release_number }} | ||
steps: | ||
- name: Login to Octopus π | ||
uses: OctopusDeploy/login@v1 | ||
with: | ||
server: ${{ secrets.OCTOPUS_URL }} | ||
service_account_id: ${{ secrets.OCTOPUS_SERVICE_ACCOUNT_ID }} | ||
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- name: Create a release in Octopus π | ||
uses: OctopusDeploy/create-release-action@v3 | ||
id: create_release | ||
with: | ||
project: ${{ env.OCTOPUS_PROJECT }} | ||
channel: "Channel alis/46" | ||
package_version: ${{ needs.release-version.outputs.version }} | ||
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octopus-deployments: | ||
runs-on: ubuntu-latest | ||
needs: octopus-release | ||
permissions: | ||
id-token: write # Required for authentication | ||
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steps: | ||
- name: Login to Octopus π | ||
uses: OctopusDeploy/login@v1 | ||
with: | ||
server: ${{ secrets.OCTOPUS_URL }} | ||
service_account_id: ${{ secrets.OCTOPUS_SERVICE_ACCOUNT_ID }} | ||
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- name: Deploy a release in Octopus Deploy π | ||
uses: OctopusDeploy/deploy-release-action@v3 | ||
with: | ||
project: ${{ env.OCTOPUS_PROJECT }} | ||
release_number: ${{ needs.octopus-release.outputs.release_number }} | ||
tenant: CDC EXT | ||
environments: Development |