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maint: upgrade ndarray crate #163

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maint: upgrade ndarray crate

maint: upgrade ndarray crate #163

Workflow file for this run

.github/workflows/test.yml at 309f79e
# The starting point of this script are the links provided on the maturing doc:
# * https://github.com/nanoporetech/fast-ctc-decode/blob/b226ea0f2b2f4f474eff47349703d57d2ea4801b/.github/workflows/publish.yml
# * https://github.com/konstin/complex-manylinux-maturin-docker/blob/main/.github/workflows/build.yml
# Description of the usage of virtual env:
# * https://packaging.python.org/guides/installing-using-pip-and-virtual-environments/
name: test-cdshealpix
on: [push, workflow_dispatch]
# Jobs run in parallel, see https://docs.github.com/en/actions/reference/workflow-syntax-for-github-actions#jobs
# Github hosted runner are: see https://docs.github.com/en/actions/using-github-hosted-runners/about-github-hosted-runners
jobs:
test-linux64-wheels:
# Containers run in Linux
runs-on: ubuntu-latest
# Docker Hub image that 'build-linux-wheels' executes in.
# See https://github.com/pypa/manylinux for this particular container:
# * CPython 3.8, 3.9, ... installed in /opt/python/<python tag>-<abi tag>
container: quay.io/pypa/manylinux2014_x86_64
env: {ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION: true} # Allow using Node16 actions required for CentOS7
# We are now in CentOS 7 64 bits
steps:
- name: "Checkout the full project"
uses: actions/checkout@v3
# We need to install rust in the docker image (else, cargo is already available in github action)
- name: "Install Rust"
run: |
curl --proto '=https' --tlsv1.2 -sSf https://sh.rustup.rs | sh -s -- -y
# Build wheels for all pre-installed python version (in /opt/python/, see docker image comment)
# installing first maturin and using maturin: https://github.com/PyO3/maturin#pypy
# For secrets, see https://docs.github.com/en/actions/reference/encrypted-secrets
- name: "Build and run tests"
shell: bash
run: |
source $HOME/.cargo/env
for PYBIN in /opt/python/cp*-cp3{8,9,10,11,12,13}/bin; do
"${PYBIN}/pip" install virtualenv
"${PYBIN}/virtualenv" cdshealpixenv
source cdshealpixenv/bin/activate
pip install --upgrade pip
pip install maturin
maturin build --release --compatibility manylinux2014
maturin develop --release
pip install -r requirements-dev.txt
python -m pytest -v
deactivate
rm -r cdshealpixenv
done
## So far desactivated because too long to build astropy wheels
#test-aarch64-wheels:
# runs-on: ubuntu-latest
# env:
# img: quay.io/pypa/manylinux2014_aarch64
# steps:
# - name: Checkout
# uses: actions/checkout@v4
# - name: "Set up QEMU"
# id: qemu
# uses: docker/setup-qemu-action@v1
# - name: Install dependencies
# run: |
# docker run --rm -v ${{ github.workspace }}:/ws:rw --workdir=/ws \
# ${{ env.img }} \
# bash -exc 'curl --proto "=https" --tlsv1.2 -sSf https://sh.rustup.rs | sh -s -- --default-host aarch64-unknown-linux-gnu -y && \
# source $HOME/.cargo/env && \
# for PYBIN in /opt/python/cp3[78910]*/bin; do
# echo "Loop on PYBIN: $PYBIN"
# "${PYBIN}/pip" install virtualenv
# "${PYBIN}/virtualenv" cdshealpixenv
# source cdshealpixenv/bin/activate
# pip install --upgrade pip
# pip install maturin
# cargo build --release --config "net.git-fetch-with-cli = true"
# maturin build --release --compatibility manylinux2014 --target aarch64-unknown-linux-gnu --config "net.git-fetch-with-cli = true"
# maturin develop --release --target aarch64-unknown-linux-gnu --config "net.git-fetch-with-cli = true"
# pip install -r requirements-dev.txt
# cd python
# python -m pytest -v -s cdshealpix/tests/test_nested_healpix.py
# python -m pytest -v -s cdshealpix/tests/test_ring_healpix.py
# cd ..
# pip freeze > requirements-uninstall.txt
# pip uninstall -r requirements-uninstall.txt -y
# deactivate
# rm -r cdshealpixenv/
# done'
test-macos-wheels:
runs-on: macos-latest
strategy:
matrix:
python-version: ['3.8', '3.9', '3.10', '3.11', '3.12', '3.13']
steps:
# Checkout the project
- name: "Checkout branch"
uses: actions/checkout@v4
# Test Rust code
#- name: Run rust wrapper tests
# run: cargo test --verbose -- --nocapture
# Set up python, see https://docs.github.com/en/actions/guides/building-and-testing-python
- name: "Set up Python ${{ matrix.python-version }} on MacOS"
uses: actions/setup-python@v4
with:
python-version: ${{ matrix.python-version }}
# Test python code
- name: "Build and test wheel for Python ${{ matrix.python-version }} on MacOS"
run: |
# Install, create and activate a python virtualenv
rustup target add x86_64-apple-darwin
pip install virtualenv
virtualenv cdshealpixenv
source cdshealpixenv/bin/activate
# Install and use maturin
pip install --upgrade pip
pip install maturin
maturin -V
maturin build --release --target universal2-apple-darwin
maturin develop --release
# Install dependencies
pip install -r requirements-dev.txt
# Run tests
python -m pytest -v
# Clean
#pip freeze > requirements-uninstall.txt
#pip uninstall -r requirements-uninstall.txt -y
deactivate
#rm -r cdshealpixenv/
test-windows-wheels:
runs-on: windows-latest
strategy:
matrix:
python-version: ['3.8', '3.9', '3.10', '3.11', '3.12', '3.13']
steps:
# Checkout the project
- name: "Checkout branch"
uses: actions/checkout@v4
# Test Rust code
#- name: Run rust wrapper tests
# run: cargo test --verbose -- --nocapture
# Set up python, see https://docs.github.com/en/actions/guides/building-and-testing-python
- name: "Set up Python ${{ matrix.python-version }} on Windows"
uses: actions/setup-python@v4
with:
python-version: ${{ matrix.python-version }}
# Test python code
- name: "Build and test wheel for Python ${{ matrix.python-version }} on Windows"
run: |
# Install, create and activate a python virtualenv
# See: https://mothergeo-py.readthedocs.io/en/latest/development/how-to/venv-win.html
pip install virtualenv
virtualenv cdshealpixenv
.\cdshealpixenv\Scripts\activate
pip install --upgrade pip
# Install and use maturin
pip install maturin
maturin -V
maturin develop --release
# Install dependencies
pip install -r requirements-dev.txt
# Run tests
python -m pytest -v
deactivate
# Build the doc and run the tests in the doc (only for python 3.12 on ubuntu)
test-doc:
runs-on: ubuntu-latest
steps:
- name: "Checkout branch"
uses: actions/checkout@v4
- name: "Set up Python 3.12 on Ubuntu"
uses: actions/setup-python@v4
with:
python-version: '3.12'
- name: "Build and test doc"
run: |
# Install virtualenv
pip install virtualenv
# Create and activate a new virtualenv
virtualenv cdshealpixenv
source cdshealpixenv/bin/activate
# Install maturin
pip install --upgrade pip
pip install maturin
sudo apt-get install pandoc
maturin -V
# Build and install cdshealpix
maturin develop --release
# Install dependencies needed to build the docs
pip install -r requirements-doc.txt
# Compile the docs and run the test examples
cd ./docs
# * Generate the HTML files
make html
# * Run the API test examples
make doctest
cd ..
# Switch of the virtualenv
deactivate