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name: "CodeQL" | ||
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on: | ||
push: | ||
branches: | ||
- dev | ||
- master | ||
- 'release/**' | ||
pull_request: | ||
branches: [ "dev" ] | ||
schedule: | ||
- cron: "23 2 * * 2" | ||
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jobs: | ||
analyze: | ||
name: Analyze | ||
runs-on: ubuntu-latest | ||
permissions: | ||
actions: read | ||
contents: read | ||
security-events: write | ||
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strategy: | ||
fail-fast: false | ||
matrix: | ||
language: [ python ] | ||
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steps: | ||
- name: Checkout | ||
uses: actions/checkout@v3 | ||
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- name: Initialize CodeQL | ||
uses: github/codeql-action/init@v2 | ||
with: | ||
languages: ${{ matrix.language }} | ||
queries: +security-and-quality | ||
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- name: Autobuild | ||
uses: github/codeql-action/autobuild@v2 | ||
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- name: Perform CodeQL Analysis | ||
uses: github/codeql-action/analyze@v2 | ||
with: | ||
category: "/language:${{ matrix.language }}" |
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name: Black | ||
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on: | ||
push: | ||
branches: | ||
- master | ||
- dev | ||
- 'release/**' | ||
pull_request: | ||
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jobs: | ||
run-linters: | ||
name: Run linters | ||
runs-on: ubuntu-latest | ||
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steps: | ||
- name: Check out Git repository | ||
uses: actions/checkout@v2 | ||
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- name: Set up Python | ||
uses: actions/setup-python@v5 | ||
with: | ||
python-version: 3.9 | ||
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- name: Install Python dependencies | ||
run: pip install black flake8 | ||
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- name: Run linters | ||
uses: samuelmeuli/lint-action@v1 | ||
with: | ||
github_token: ${{ secrets.github_token }} | ||
# Enable linters | ||
black: true | ||
flake8: false | ||
# Mark the following line true if you want linters to attempt to autocorrect your code | ||
auto_fix: false | ||
git_name: "Greene Lab Linter" | ||
git_email: "[email protected]" |
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name: packaging | ||
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on: | ||
# Make sure packaging process is not broken | ||
push: | ||
branches: | ||
- master | ||
- dev | ||
- 'release/**' | ||
pull_request: | ||
# Make a package for release | ||
release: | ||
types: [published] | ||
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jobs: | ||
build: | ||
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runs-on: ubuntu-latest | ||
strategy: | ||
max-parallel: 4 | ||
matrix: | ||
python-version: [3.9] | ||
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steps: | ||
- uses: actions/checkout@v1 | ||
- name: Set up Python ${{ matrix.python-version }} | ||
uses: actions/setup-python@v5 | ||
with: | ||
python-version: ${{ matrix.python-version }} | ||
- name: Install dependencies | ||
run: | | ||
python -m pip install --upgrade pip setuptools setuptools_scm twine wheel build | ||
- name: Create packages | ||
run: python -m build . | ||
- name: Run twine check | ||
run: twine check dist/* | ||
- uses: actions/upload-artifact@v4 | ||
with: | ||
name: tox-gh-actions-dist | ||
path: dist |
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# NB: this name is used in the status badge | ||
name: tox checks | ||
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on: | ||
push: | ||
branches: | ||
- master | ||
- dev | ||
- 'release/**' | ||
pull_request: | ||
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workflow_dispatch: | ||
schedule: | ||
- cron: "0 5 * * 6" # 5:00 UTC every Saturday | ||
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jobs: | ||
lint: | ||
name: ${{ matrix.toxenv }} | ||
runs-on: ubuntu-latest | ||
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strategy: | ||
matrix: | ||
toxenv: | ||
- clean | ||
- check | ||
- docs | ||
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steps: | ||
- name: Update package list | ||
run: sudo apt update | ||
- name: Install LaTeX | ||
run: sudo apt install dvipng rubber texlive-latex-extra | ||
- name: Git clone | ||
uses: actions/checkout@v2 | ||
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- name: Set up Python ${{ env.default_python || '3.9' }} | ||
uses: actions/setup-python@v5 | ||
with: | ||
python-version: "${{ env.default_python || '3.9' }}" | ||
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- name: Pip cache | ||
uses: actions/cache@v2 | ||
with: | ||
path: ~/.cache/pip | ||
key: ${{ runner.os }}-pip-${{ matrix.toxenv }}-${{ hashFiles('tox.ini', 'setup.py') }} | ||
restore-keys: | | ||
${{ runner.os }}-pip-${{ matrix.toxenv }}- | ||
${{ runner.os }}-pip- | ||
- name: Install dependencies | ||
run: | | ||
python -m pip install -U pip | ||
python -m pip install -U setuptools wheel build | ||
python -m pip install -U tox | ||
- name: Run ${{ matrix.toxenv }} | ||
run: python -m tox -e ${{ matrix.toxenv }} |
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name: tox pytests | ||
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on: | ||
push: | ||
branches: | ||
- master | ||
- dev | ||
- 'release/**' | ||
pull_request: | ||
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workflow_dispatch: | ||
schedule: | ||
- cron: "0 5 * * 6" # 5:00 UTC every Saturday | ||
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jobs: | ||
build: | ||
runs-on: ubuntu-latest | ||
strategy: | ||
matrix: | ||
python-version: [3.9, "3.10", "3.11"] | ||
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steps: | ||
- uses: actions/checkout@v1 | ||
- name: Install cbc | ||
run: sudo apt install coinor-cbc | ||
- name: Set up Python ${{ matrix.python-version }} | ||
uses: actions/setup-python@v5 | ||
with: | ||
python-version: ${{ matrix.python-version }} | ||
- name: Install dependencies | ||
run: | | ||
python -m pip install --upgrade pip | ||
pip install tox tox-gh-actions coverage coveralls | ||
- name: Test with tox | ||
run: tox | ||
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- name: Check test coverage | ||
run: coverage report -m --fail-under=${{ matrix.vcs == 'bzr' && 84 || 85 }} | ||
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- name: Report to coveralls | ||
run: coveralls | ||
env: | ||
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | ||
COVERALLS_SERVICE_NAME: github |