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benjefferybenjeffery
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Add custom launcher
1 parent 67401e5 commit 5a8274c

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‎.github/workflows/test.yml

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- name: Build the JupyterLite site
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run: |
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cp README.md content
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cd tskit-launcher
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jlpm install
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jlpm run build
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pip install -e .
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cd ..
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jupyter lite build --contents content --output-dir dist

‎repl/jupyter-lite.json

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"jupyter-lite-schema-version": 0,
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"jupyter-config-data": {
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"disabledExtensions": [
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"@jupyterlab/drawio-extension",
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"jupyterlab-kernel-spy",
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"jupyterlab-tour"
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// "@jupyterlab/drawio-extension",
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// "jupyterlab-kernel-spy",
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"@jupyterlab/launcher",
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"@jupyterlab/launcher-extension",
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"@jupyterlab/launcher-extension:plugin"
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"@jupyterlab/application-extension:logo"
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]
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}
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}

‎repl/jupyter_lite_config.json

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{
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"LiteBuildConfig": {
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"contents": ["content"],
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"output_dir": "dist"
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},
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"FederatedExtensionAddon": {
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"enabled_extensions": ["tskit_custom_jupyter_launcher"]
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}
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}

‎requirements.txt

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# Python kernel (optional)
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jupyterlite-pyodide-kernel==0.6.1
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# JavaScript kernel (optional)
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jupyterlite-javascript-kernel==0.3.0
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# Language support (optional)
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jupyterlab-language-pack-fr-FR
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jupyterlab-language-pack-zh-CN
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# P5 kernel (optional)
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jupyterlite-p5-kernel==0.1.0
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# JupyterLab: Fasta file renderer (optional)
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jupyterlab-fasta>=3.3.0,<4
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# JupyterLab: Geojson file renderer (optional)
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jupyterlab-geojson>=3.4.0,<4
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# JupyterLab: guided tour (optional)
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# TODO: re-enable after https://github.com/jupyterlab-contrib/jupyterlab-tour/issues/82
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# jupyterlab-tour
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jupyterlab-tour
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# JupyterLab: dark theme
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jupyterlab-night
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# JupyterLab: Miami nights theme (optional)
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ipympl>=0.8.2
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# Python: ipycanvas library for Jupyter notebooks (optional)
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ipycanvas>=0.9.1
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# Python: ipyleaflet library for Jupyter notebooks (optional)
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ipyleaflet
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# Python: plotting libraries (optional)
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plotly>=6,<7
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bqplot

‎tskit-launcher/.copier-answers.yml

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# Changes here will be overwritten by Copier; NEVER EDIT MANUALLY
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_commit: v4.3.8
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_src_path: https://github.com/jupyterlab/extension-template
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author_email: ben.jeffery@bdi.ox.ac.uk
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author_name: tskit-launcher
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data_format: string
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file_extension: ''
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has_binder: false
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has_settings: false
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kind: frontend
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labextension_name: tskit_launcher
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mimetype: ''
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mimetype_name: ''
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project_short_description: Tskit custom launcher
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python_name: tskit_launcher
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repository: n/a
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test: false
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viewer_name: ''
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‎tskit-launcher/.github/workflows/build.yml

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name: Build
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on:
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push:
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branches: main
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pull_request:
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branches: '*'
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concurrency:
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group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}
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cancel-in-progress: true
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jobs:
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build:
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runs-on: ubuntu-latest
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steps:
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- name: Checkout
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uses: actions/checkout@v4
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- name: Base Setup
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uses: jupyterlab/maintainer-tools/.github/actions/base-setup@v1
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- name: Install dependencies
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run: python -m pip install -U "jupyterlab>=4.0.0,<5"
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- name: Lint the extension
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run: |
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set -eux
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jlpm
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jlpm run lint:check
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- name: Build the extension
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run: |
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set -eux
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python -m pip install .[test]
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jupyter labextension list
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jupyter labextension list 2>&1 | grep -ie "tskit_launcher.*OK"
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python -m jupyterlab.browser_check
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- name: Package the extension
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run: |
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set -eux
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pip install build
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python -m build
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pip uninstall -y "tskit_launcher" jupyterlab
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- name: Upload extension packages
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uses: actions/upload-artifact@v4
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with:
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name: extension-artifacts
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path: dist/tskit_launcher*
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if-no-files-found: error
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test_isolated:
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needs: build
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runs-on: ubuntu-latest
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steps:
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- name: Install Python
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uses: actions/setup-python@v5
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with:
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python-version: '3.9'
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architecture: 'x64'
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- uses: actions/download-artifact@v4
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with:
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name: extension-artifacts
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- name: Install and Test
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run: |
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set -eux
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# Remove NodeJS, twice to take care of system and locally installed node versions.
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sudo rm -rf $(which node)
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sudo rm -rf $(which node)
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pip install "jupyterlab>=4.0.0,<5" tskit_launcher*.whl
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jupyter labextension list
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jupyter labextension list 2>&1 | grep -ie "tskit_launcher.*OK"
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python -m jupyterlab.browser_check --no-browser-test
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check_links:
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name: Check Links
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runs-on: ubuntu-latest
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timeout-minutes: 15
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steps:
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- uses: actions/checkout@v4
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- uses: jupyterlab/maintainer-tools/.github/actions/base-setup@v1
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- uses: jupyterlab/maintainer-tools/.github/actions/check-links@v1

‎tskit-launcher/.github/workflows/check-release.yml

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name: Check Release
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on:
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push:
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branches: ["main"]
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pull_request:
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branches: ["*"]
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concurrency:
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group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}
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cancel-in-progress: true
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jobs:
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check_release:
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runs-on: ubuntu-latest
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steps:
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- name: Checkout
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uses: actions/checkout@v4
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- name: Base Setup
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uses: jupyterlab/maintainer-tools/.github/actions/base-setup@v1
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- name: Check Release
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uses: jupyter-server/jupyter_releaser/.github/actions/check-release@v2
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with:
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token: ${{ secrets.GITHUB_TOKEN }}
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- name: Upload Distributions
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uses: actions/upload-artifact@v4
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with:
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name: tskit_launcher-releaser-dist-${{ github.run_number }}
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path: .jupyter_releaser_checkout/dist

‎tskit-launcher/.github/workflows/enforce-label.yml

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name: Enforce PR label
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on:
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pull_request:
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types: [labeled, unlabeled, opened, edited, synchronize]
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jobs:
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enforce-label:
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runs-on: ubuntu-latest
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permissions:
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pull-requests: write
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steps:
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- name: enforce-triage-label
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uses: jupyterlab/maintainer-tools/.github/actions/enforce-label@v1

‎tskit-launcher/.github/workflows/prep-release.yml

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name: "Step 1: Prep Release"
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on:
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workflow_dispatch:
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inputs:
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version_spec:
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description: "New Version Specifier"
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default: "next"
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required: false
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branch:
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description: "The branch to target"
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required: false
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post_version_spec:
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description: "Post Version Specifier"
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required: false
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# silent:
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# description: "Set a placeholder in the changelog and don't publish the release."
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# required: false
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# type: boolean
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since:
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description: "Use PRs with activity since this date or git reference"
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required: false
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since_last_stable:
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description: "Use PRs with activity since the last stable git tag"
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required: false
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type: boolean
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jobs:
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prep_release:
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runs-on: ubuntu-latest
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permissions:
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contents: write
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steps:
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- uses: jupyterlab/maintainer-tools/.github/actions/base-setup@v1
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- name: Prep Release
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id: prep-release
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uses: jupyter-server/jupyter_releaser/.github/actions/prep-release@v2
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with:
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token: ${{ secrets.GITHUB_TOKEN }}
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version_spec: ${{ github.event.inputs.version_spec }}
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# silent: ${{ github.event.inputs.silent }}
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post_version_spec: ${{ github.event.inputs.post_version_spec }}
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branch: ${{ github.event.inputs.branch }}
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since: ${{ github.event.inputs.since }}
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since_last_stable: ${{ github.event.inputs.since_last_stable }}
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- name: "** Next Step **"
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run: |
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echo "Optional): Review Draft Release: ${{ steps.prep-release.outputs.release_url }}"

‎tskit-launcher/.github/workflows/publish-release.yml

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name: "Step 2: Publish Release"
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on:
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workflow_dispatch:
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inputs:
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branch:
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description: "The target branch"
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required: false
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release_url:
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description: "The URL of the draft GitHub release"
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required: false
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steps_to_skip:
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description: "Comma separated list of steps to skip"
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required: false
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jobs:
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publish_release:
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runs-on: ubuntu-latest
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environment: release
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permissions:
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id-token: write
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steps:
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- uses: jupyterlab/maintainer-tools/.github/actions/base-setup@v1
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- uses: actions/create-github-app-token@v1
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id: app-token
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with:
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app-id: ${{ vars.APP_ID }}
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private-key: ${{ secrets.APP_PRIVATE_KEY }}
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- name: Populate Release
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id: populate-release
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uses: jupyter-server/jupyter_releaser/.github/actions/populate-release@v2
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with:
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token: ${{ steps.app-token.outputs.token }}
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branch: ${{ github.event.inputs.branch }}
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release_url: ${{ github.event.inputs.release_url }}
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steps_to_skip: ${{ github.event.inputs.steps_to_skip }}
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- name: Finalize Release
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id: finalize-release
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env:
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NPM_TOKEN: ${{ secrets.NPM_TOKEN }}
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uses: jupyter-server/jupyter_releaser/.github/actions/finalize-release@v2
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with:
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token: ${{ steps.app-token.outputs.token }}
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release_url: ${{ steps.populate-release.outputs.release_url }}
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- name: "** Next Step **"
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if: ${{ success() }}
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run: |
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echo "Verify the final release"
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echo ${{ steps.finalize-release.outputs.release_url }}
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- name: "** Failure Message **"
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if: ${{ failure() }}
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run: |
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echo "Failed to Publish the Draft Release Url:"
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echo ${{ steps.populate-release.outputs.release_url }}

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