add __version__ to init #79
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name: ci-pytest | |
on: | |
push: | |
branches: | |
- master | |
pull_request: | |
branches: | |
- master | |
workflow_dispatch: | |
env: | |
# Updates or changes to this, or the runner OS or arch will invalidate the cache | |
python_version: '3.10' # Python version to use for testing - update when needed | |
jobs: | |
test: | |
runs-on: ubuntu-20.04 | |
# Default shell needs to be bash for conda | |
# https://github.com/conda-incubator/setup-miniconda?tab=readme-ov-file#important | |
defaults: | |
run: | |
shell: bash -el {0} | |
steps: | |
- name: Setup Miniconda | |
uses: conda-incubator/setup-miniconda@030178870c779d9e5e1b4e563269f3aa69b04081 # v3.0.3, devs recommend using hash | |
with: | |
miniconda-version: "latest" | |
python-version: ${{ env.python_version }} | |
auto-update-conda: true | |
activate-environment: "test-env" | |
- name: Configure Conda to use only .tar.bz2 | |
run: | | |
conda config --set use_only_tar_bz2 true | |
- name: Checkout code | |
uses: actions/checkout@v4 # Checkout PR code to 'antspy-pr' | |
with: | |
path: antspy-pr | |
- name: Load conda environment from cache if available | |
id: cache-env | |
uses: actions/cache@v4 | |
with: | |
path: ~/conda-env.tar.bz2 | |
key: >- | |
${{ runner.os }}-conda-${{ env.python_version }}-${{ hashFiles('antspy-pr/ants/environment.yml', | |
'antspy-pr/ants/requirements.txt', 'antspy-pr/ants/setup.py', 'antspy-pr/scripts/configure_ITK.sh', | |
'antspy-pr/scripts/configure_ANTsPy.sh', 'antspy-pr/ants/lib/*') }} | |
- name: Unpack cached environment | |
if: steps.cache-env.outputs.cache-hit == 'true' | |
run: | | |
mkdir -p ${CONDA}/envs/antspy-env | |
tar -xjf ~/conda-env.tar.bz2 -C ${CONDA}/envs/antspy-env | |
conda activate antspy-env | |
conda-unpack | |
- name: Install dependencies and ANTsPy from PR | |
if: steps.cache-env.outputs.cache-hit != 'true' | |
run: | | |
conda create -n antspy-env python=${{ env.python_version }} -y | |
conda activate antspy-env | |
conda install -c conda-forge conda-pack coverage | |
conda info | |
pip install ./antspy-pr | |
conda list | |
antspy-pr/tests/run_tests.sh -c | |
conda pack -n antspy-env -o ~/conda-env.tar.bz2 | |
- name: Cache Conda environment | |
if: steps.cache-env.outputs.cache-hit != 'true' | |
uses: actions/cache@v4 | |
with: | |
path: ~/conda-env.tar.bz2 | |
key: >- | |
${{ runner.os }}-conda-${{ env.python_version }}-${{ hashFiles('antspy-pr/ants/environment.yml', | |
'antspy-pr/ants/requirements.txt', 'antspy-pr/ants/setup.py', 'antspy-pr/scripts/configure_ITK.sh', | |
'antspy-pr/scripts/configure_ANTsPy.sh', 'antspy-pr/ants/lib/*') }}) }} | |
- name: Replace installed ANTsPy with PR code | |
if: steps.cache-env.outputs.cache-hit == 'true' | |
run: | | |
conda activate antspy-env | |
ANTS_SITE_PACKAGES="${CONDA}/envs/antspy-env/lib/python${{ env.python_version }}/site-packages/ants" | |
for d in contrib core learn registration segmentation utils viz; do | |
rm -rf $ANTS_SITE_PACKAGES/$d; | |
cp -r antspy-pr/ants/$d $ANTS_SITE_PACKAGES/$d; | |
done | |
find $ANTS_SITE_PACKAGES -name '__pycache__' -exec rm -rf {} + | |
- name: Run tests | |
if: steps.cache-env.outputs.cache-hit == 'true' | |
run: | | |
conda activate antspy-env | |
bash antspy-pr/tests/run_tests.sh -c | |
- name: Coveralls | |
uses: coverallsapp/github-action@v2 | |
with: | |
files: antspy-pr/tests/coverage.xml | |