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test_on_push.yml
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name: PyBaMM
on:
workflow_dispatch:
pull_request:
env:
FORCE_COLOR: 3
concurrency:
# github.workflow: name of the workflow, so that we don't cancel other workflows
# github.event.pull_request.number || github.ref: pull request number or branch name if not a pull request
group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}
# Cancel in-progress runs when a new workflow with the same group name is triggered
# This avoids workflow runs on both pushes and PRs
cancel-in-progress: true
jobs:
style:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v4
- name: Setup Python
uses: actions/setup-python@v5
with:
python-version: 3.12
- name: Check style
run: |
python -m pip install pre-commit
pre-commit run -a
run_unit_tests:
needs: style
runs-on: ${{ matrix.os }}
strategy:
fail-fast: false
matrix:
os: [ubuntu-latest, macos-latest, windows-latest]
python-version: ["3.8", "3.9", "3.10", "3.11", "3.12"]
# We check coverage on Ubuntu with Python 3.11, so we skip unit tests for it here
# TODO: check coverage with Python 3.12 when [odes] supports it
exclude:
- os: ubuntu-latest
python-version: "3.11"
# Include macOS M1 runners
include:
- os: macos-14
python-version: "3.10"
- os: macos-14
python-version: "3.11"
- os: macos-14
python-version: "3.12"
name: Unit tests (${{ matrix.os }} / Python ${{ matrix.python-version }})
steps:
- name: Check out PyBaMM repository
uses: actions/checkout@v4
# Install and cache apt packages
- name: Install Linux system dependencies
uses: awalsh128/[email protected]
if: matrix.os == 'ubuntu-latest'
with:
packages: gfortran gcc graphviz pandoc
execute_install_scripts: true
# dot -c is for registering graphviz fonts and plugins
- name: Install OpenBLAS and TeXLive for Linux
if: matrix.os == 'ubuntu-latest'
run: |
sudo apt-get update
sudo dot -c
sudo apt-get install libopenblas-dev texlive-latex-extra dvipng
- name: Install macOS system dependencies
if: matrix.os == 'macos-latest' || matrix.os == 'macos-14'
env:
# Homebrew environment variables
HOMEBREW_NO_INSTALL_CLEANUP: 1
HOMEBREW_NO_AUTO_UPDATE: 1
HOMEBREW_NO_COLOR: 1
# Speed up CI
NONINTERACTIVE: 1
# sometimes gfortran cannot be found, so reinstall gcc just to be sure
run: |
brew analytics off
brew install graphviz openblas libomp
brew reinstall gcc
- name: Install Windows system dependencies
if: matrix.os == 'windows-latest'
run: choco install graphviz --version=8.0.5
- name: Set up Python ${{ matrix.python-version }}
id: setup-python
uses: actions/setup-python@v5
with:
python-version: ${{ matrix.python-version }}
cache: 'pip'
- name: Install nox
run: python -m pip install nox
- name: Cache pybamm-requires nox environment for GNU/Linux and macOS
uses: actions/cache@v4
if: matrix.os != 'windows-latest'
with:
path: |
# Repository files
${{ github.workspace }}/pybind11/
${{ github.workspace }}/install_KLU_Sundials/
# Headers and dynamic library files for SuiteSparse and SUNDIALS
${{ env.HOME }}/.local/lib/
${{ env.HOME }}/.local/include/
key: nox-${{ matrix.os }}-pybamm-requires-${{ steps.setup-python.outputs.python-version }}-${{ hashFiles('**/install_KLU_Sundials.py', '**/noxfile.py', '**/test_on_push.yml') }}
- name: Install SuiteSparse and SUNDIALS on GNU/Linux and macOS
timeout-minutes: 10
if: matrix.os != 'windows-latest'
run: python -m nox -s pybamm-requires
- name: Run unit tests for ${{ matrix.os }} with Python ${{ matrix.python-version }}
run: python -m nox -s unit
# Runs only on Ubuntu with Python 3.11
# TODO: check coverage with Python 3.12 when [odes] supports it
check_coverage:
needs: style
runs-on: ubuntu-latest
strategy:
fail-fast: false
name: Coverage tests (ubuntu-latest / Python 3.11)
steps:
- name: Check out PyBaMM repository
uses: actions/checkout@v4
# Install and cache apt packages
- name: Install Linux system dependencies
uses: awalsh128/[email protected]
with:
packages: gfortran gcc graphviz pandoc
execute_install_scripts: true
# dot -c is for registering graphviz fonts and plugins
- name: Install OpenBLAS and TeXLive for Linux
run: |
sudo apt-get update
sudo dot -c
sudo apt-get install libopenblas-dev texlive-latex-extra dvipng
- name: Set up Python 3.11
id: setup-python
uses: actions/setup-python@v5
with:
python-version: 3.11
cache: 'pip'
- name: Install nox
run: python -m pip install nox
- name: Cache pybamm-requires nox environment for GNU/Linux
uses: actions/cache@v4
with:
path: |
# Repository files
${{ github.workspace }}/pybind11/
${{ github.workspace }}/install_KLU_Sundials/
# Headers and dynamic library files for SuiteSparse and SUNDIALS
${{ env.HOME }}/.local/lib/
${{ env.HOME }}/.local/include/
key: nox-${{ matrix.os }}-pybamm-requires-${{ steps.setup-python.outputs.python-version }}-${{ hashFiles('**/install_KLU_Sundials.py', '**/noxfile.py', '**/test_on_push.yml') }}
- name: Install SuiteSparse and SUNDIALS on GNU/Linux
timeout-minutes: 10
run: python -m nox -s pybamm-requires
- name: Run unit tests for Ubuntu with Python 3.11 and generate coverage report
run: python -m nox -s coverage
- name: Upload coverage report
uses: codecov/[email protected]
with:
token: ${{ secrets.CODECOV_TOKEN }}
run_integration_tests:
needs: style
runs-on: ${{ matrix.os }}
strategy:
fail-fast: false
matrix:
os: [ubuntu-latest, macos-latest, windows-latest]
python-version: ["3.8", "3.9", "3.10", "3.11", "3.12"]
# Include macOS M1 runners
include:
- os: macos-14
python-version: "3.10"
- os: macos-14
python-version: "3.11"
- os: macos-14
python-version: "3.12"
name: Integration tests (${{ matrix.os }} / Python ${{ matrix.python-version }})
steps:
- name: Check out PyBaMM repository
uses: actions/checkout@v4
# Install and cache apt packages
- name: Install Linux system dependencies
uses: awalsh128/[email protected]
if: matrix.os == 'ubuntu-latest'
with:
packages: gfortran gcc graphviz pandoc
execute_install_scripts: true
# dot -c is for registering graphviz fonts and plugins
- name: Install OpenBLAS and TeXLive for Linux
if: matrix.os == 'ubuntu-latest'
run: |
sudo apt-get update
sudo dot -c
sudo apt-get install libopenblas-dev texlive-latex-extra dvipng
- name: Install macOS system dependencies
if: matrix.os == 'macos-latest' || matrix.os == 'macos-14'
env:
# Homebrew environment variables
HOMEBREW_NO_INSTALL_CLEANUP: 1
HOMEBREW_NO_AUTO_UPDATE: 1
HOMEBREW_NO_COLOR: 1
# Speed up CI
NONINTERACTIVE: 1
# sometimes gfortran cannot be found, so reinstall gcc just to be sure
run: |
brew analytics off
brew install graphviz openblas libomp
brew reinstall gcc
- name: Install Windows system dependencies
if: matrix.os == 'windows-latest'
run: choco install graphviz --version=8.0.5
- name: Set up Python ${{ matrix.python-version }}
id: setup-python
uses: actions/setup-python@v5
with:
python-version: ${{ matrix.python-version }}
cache: 'pip'
- name: Install nox
run: python -m pip install nox
- name: Cache pybamm-requires nox environment for GNU/Linux and macOS
uses: actions/cache@v4
if: matrix.os != 'windows-latest'
with:
path: |
# Repository files
${{ github.workspace }}/pybind11/
${{ github.workspace }}/install_KLU_Sundials/
# Headers and dynamic library files for SuiteSparse and SUNDIALS
${{ env.HOME }}/.local/lib/
${{ env.HOME }}/.local/include/
key: nox-${{ matrix.os }}-pybamm-requires-${{ steps.setup-python.outputs.python-version }}-${{ hashFiles('**/install_KLU_Sundials.py', '**/noxfile.py', '**/test_on_push.yml') }}
- name: Install SuiteSparse and SUNDIALS on GNU/Linux and macOS
timeout-minutes: 10
if: matrix.os != 'windows-latest'
run: python -m nox -s pybamm-requires
- name: Run integration tests for ${{ matrix.os }} with Python ${{ matrix.python-version }}
run: python -m nox -s integration
# Runs only on Ubuntu with Python 3.12. Skips IDAKLU module compilation
# for speedups, which is already tested in other jobs.
run_doctests:
needs: style
runs-on: ubuntu-latest
strategy:
fail-fast: false
name: Doctests (ubuntu-latest / Python 3.11)
steps:
- name: Check out PyBaMM repository
uses: actions/checkout@v4
with:
fetch-depth: 0
# Install and cache apt packages
- name: Install Linux system dependencies
uses: awalsh128/[email protected]
with:
packages: graphviz pandoc
execute_install_scripts: true
# dot -c is for registering graphviz fonts and plugins
- name: Install TeXLive for Linux
run: |
sudo apt-get update
sudo dot -c
sudo apt-get install texlive-latex-extra dvipng
- name: Set up Python 3.11
id: setup-python
uses: actions/setup-python@v5
with:
python-version: 3.11
cache: 'pip'
- name: Install nox
run: python -m pip install nox
- name: Install docs dependencies and run doctests for GNU/Linux with Python 3.11
run: python -m nox -s doctests
- name: Check if the documentation can be built for GNU/Linux with Python 3.11
run: python -m nox -s docs
# Runs only on Ubuntu with Python 3.12
run_example_tests:
needs: style
runs-on: ubuntu-latest
strategy:
fail-fast: false
name: Example notebooks (ubuntu-latest / Python 3.12)
steps:
- name: Check out PyBaMM repository
uses: actions/checkout@v4
# Install and cache apt packages
- name: Install Linux system dependencies
uses: awalsh128/[email protected]
with:
packages: gfortran gcc graphviz pandoc
execute_install_scripts: true
# dot -c is for registering graphviz fonts and plugins
- name: Install OpenBLAS and TeXLive for Linux
run: |
sudo apt-get update
sudo dot -c
sudo apt-get install libopenblas-dev texlive-latex-extra dvipng
- name: Set up Python 3.12
id: setup-python
uses: actions/setup-python@v5
with:
python-version: 3.12
cache: 'pip'
- name: Install nox
run: python -m pip install nox
- name: Cache pybamm-requires nox environment for GNU/Linux
uses: actions/cache@v4
with:
path: |
# Repository files
${{ github.workspace }}/pybind11/
${{ github.workspace }}/install_KLU_Sundials/
# Headers and dynamic library files for SuiteSparse and SUNDIALS
${{ env.HOME }}/.local/lib/
${{ env.HOME }}/.local/include/
key: nox-${{ matrix.os }}-pybamm-requires-${{ steps.setup-python.outputs.python-version }}-${{ hashFiles('**/install_KLU_Sundials.py', '**/noxfile.py', '**/test_on_push.yml') }}
- name: Install SuiteSparse and SUNDIALS on GNU/Linux
timeout-minutes: 10
run: python -m nox -s pybamm-requires
- name: Run example notebooks tests for GNU/Linux with Python 3.12
run: python -m nox -s examples
# Runs only on Ubuntu with Python 3.12
run_scripts_tests:
needs: style
runs-on: ubuntu-latest
strategy:
fail-fast: false
name: Example scripts (ubuntu-latest / Python 3.12)
steps:
- name: Check out PyBaMM repository
uses: actions/checkout@v4
# Install and cache apt packages
- name: Install Linux system dependencies
uses: awalsh128/[email protected]
with:
packages: gfortran gcc graphviz
execute_install_scripts: true
# dot -c is for registering graphviz fonts and plugins
- name: Install OpenBLAS and TeXLive for Linux
run: |
sudo apt-get update
sudo dot -c
sudo apt-get install libopenblas-dev texlive-latex-extra dvipng
- name: Set up Python 3.12
id: setup-python
uses: actions/setup-python@v5
with:
python-version: 3.12
cache: 'pip'
- name: Install nox
run: python -m pip install nox
- name: Cache pybamm-requires nox environment for GNU/Linux
uses: actions/cache@v4
with:
path: |
# Repository files
${{ github.workspace }}/pybind11/
${{ github.workspace }}/install_KLU_Sundials/
# Headers and dynamic library files for SuiteSparse and SUNDIALS
${{ env.HOME }}/.local/lib/
${{ env.HOME }}/.local/include/
key: nox-${{ matrix.os }}-pybamm-requires-${{ steps.setup-python.outputs.python-version }}-${{ hashFiles('**/install_KLU_Sundials.py', '**/noxfile.py', '**/test_on_push.yml') }}
- name: Install SuiteSparse and SUNDIALS on GNU/Linux
timeout-minutes: 10
run: python -m nox -s pybamm-requires
- name: Run example scripts tests for GNU/Linux with Python 3.12
run: python -m nox -s scripts