Fig S2 legend #137
Workflow file for this run
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name: Manubot | |
on: | |
push: | |
branches: | |
- main | |
pull_request: | |
branches: | |
- main | |
workflow_dispatch: | |
inputs: | |
BUILD_PDF: | |
type: boolean | |
description: generate PDF output | |
default: true | |
BUILD_DOCX: | |
type: boolean | |
description: generate DOCX output | |
default: false | |
BUILD_LATEX: | |
type: boolean | |
description: generate LaTeX output | |
default: false | |
SPELLCHECK: | |
type: boolean | |
description: Check spelling | |
default: true | |
MANUBOT_USE_DOCKER: | |
type: boolean | |
description: Use Docker to generate PDF | |
default: true | |
concurrency: | |
# only one run per branch at a time | |
group: ${{ github.workflow }}-${{ github.ref }} | |
cancel-in-progress: true | |
jobs: | |
manubot: | |
name: Manubot | |
runs-on: ubuntu-latest | |
permissions: | |
contents: write | |
pull-requests: write | |
env: | |
GITHUB_PULL_REQUEST_SHA: ${{ github.event.pull_request.head.sha }} | |
# Set SPELLCHECK to true/false for whether to check spelling in this action. | |
# For workflow dispatch jobs, this SPELLCHECK setting will be overridden by the user input. | |
SPELLCHECK: true | |
defaults: | |
run: | |
shell: bash --login {0} | |
steps: | |
- name: Checkout Repository | |
uses: actions/checkout@v4 | |
with: | |
# fetch entire commit history to support get_rootstock_commit | |
fetch-depth: 0 | |
- name: Set Environment Variables (Workflow Dispatch) | |
if: github.event_name == 'workflow_dispatch' | |
run: | | |
echo "BUILD_PDF=${{ github.event.inputs.BUILD_PDF }}" >> $GITHUB_ENV | |
echo "BUILD_DOCX=${{ github.event.inputs.BUILD_DOCX }}" >> $GITHUB_ENV | |
echo "BUILD_LATEX=${{ github.event.inputs.BUILD_LATEX }}" >> $GITHUB_ENV | |
echo "SPELLCHECK=${{ github.event.inputs.SPELLCHECK }}" >> $GITHUB_ENV | |
echo "MANUBOT_USE_DOCKER=${{ github.event.inputs.MANUBOT_USE_DOCKER }}" >> $GITHUB_ENV | |
- name: Set Environment Variables | |
run: | | |
TRIGGERING_SHA=${GITHUB_PULL_REQUEST_SHA:-$GITHUB_SHA} | |
echo "TRIGGERING_SHA_7=${TRIGGERING_SHA::7}" >> $GITHUB_ENV | |
echo "TRIGGERING_SHA: $TRIGGERING_SHA" | |
DEFAULT_BRANCH=${{ github.event.repository.default_branch }} | |
echo "DEFAULT_BRANCH=${DEFAULT_BRANCH}" >> $GITHUB_ENV | |
echo "DEFAULT_BRANCH_REF=refs/heads/$DEFAULT_BRANCH" >> $GITHUB_ENV | |
echo "DEFAULT_BRANCH=$DEFAULT_BRANCH" | |
- name: Cache | |
uses: actions/cache@v4 | |
with: | |
path: ci/cache | |
key: ci-cache-${{ github.ref }} | |
restore-keys: | | |
ci-cache-${{ env.DEFAULT_BRANCH_REF }} | |
- name: Install Environment | |
uses: conda-incubator/setup-miniconda@v3 | |
with: | |
activate-environment: manubot | |
environment-file: build/environment.yml | |
auto-activate-base: false | |
miniforge-variant: Mambaforge | |
miniforge-version: "latest" | |
use-mamba: true | |
- name: Install Spellcheck | |
if: env.SPELLCHECK == 'true' | |
run: bash ci/install-spellcheck.sh | |
- name: Build Manuscript | |
run: bash build/build.sh | |
- name: Upload Artifacts | |
uses: actions/upload-artifact@v4 | |
id: artifact-upload-step | |
with: | |
name: manuscript-${{ github.run_id }}-${{ env.TRIGGERING_SHA_7 }} | |
path: output | |
- name: Deploy Manuscript | |
if: github.ref == env.DEFAULT_BRANCH_REF && github.event_name != 'pull_request' && !github.event.repository.fork | |
env: | |
MANUBOT_ACCESS_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
MANUBOT_SSH_PRIVATE_KEY: ${{ secrets.MANUBOT_SSH_PRIVATE_KEY }} | |
CI_BUILD_WEB_URL: https://github.com/${{ github.repository }}/commit/${{ github.sha }}/checks | |
CI_JOB_WEB_URL: https://github.com/${{ github.repository }}/actions/runs/${{ github.run_id }} | |
run: bash ci/deploy.sh | |
- name: Post artifact comment to PR | |
if: github.event_name == 'pull_request' | |
uses: peter-evans/create-or-update-comment@v4 | |
with: | |
issue-number: ${{ github.event.pull_request.number }} | |
body: | | |
**Click the link below to download the manuscript build as a ZIP file.** | |
This build is associated with commit ${{ env.TRIGGERING_SHA_7 }}. | |
[Manuscript build](${{ steps.artifact-upload-step.outputs.artifact-url }}) |