Migrate from circleci to github actions #57
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name: CI | |
on: | |
push: | |
branches: | |
- main | |
pull_request: | |
branches: | |
- main | |
jobs: | |
pre_commit_check: | |
name: Pre-Commit Check | |
runs-on: ubuntu-latest | |
defaults: | |
run: | |
shell: bash -l {0} | |
env: | |
BRANCH_NAME: ${{ github.head_ref || github.ref_name }} | |
steps: | |
- name: Checkout code | |
uses: actions/checkout@v4 | |
- uses: conda-incubator/setup-miniconda@v3 | |
with: | |
auto-update-conda: true | |
auto-activate-base: false | |
activate-environment: tiktorch-server-env | |
environment-file: environment.yml | |
channel-priority: flexible | |
miniforge-variant: Miniforge3 | |
- name: Run Pre-Commit | |
run: | | |
echo $BRANCH_NAME | |
echo ${{ github.event.pull_request.base.ref }} | |
echo ${{ github.event.pull_request.head.sha }} | |
git fetch origin | |
pre-commit run --from-ref origin/${{ github.event.pull_request.base.ref }} --to-ref ${{ github.event.pull_request.head.sha }} | |
test-dev: | |
runs-on: ubuntu-latest | |
defaults: | |
run: | |
shell: bash -l {0} | |
steps: | |
- name: Checkout code | |
uses: actions/checkout@v4 | |
- uses: conda-incubator/setup-miniconda@v3 | |
with: | |
auto-update-conda: true | |
auto-activate-base: false | |
activate-environment: tiktorch-server-env | |
environment-file: environment.yml | |
channel-priority: flexible | |
miniforge-variant: Miniforge3 | |
- name: conda diagnostics | |
run: | | |
conda info | |
- name: install submodules | |
run: | | |
git submodule init | |
git submodule update | |
make install_submodules | |
- name: Run tests | |
run: | | |
pytest -v -s --cov=tiktorch --cov-report=xml | |
- name: Upload coverage to Codecov | |
uses: codecov/codecov-action@v4 | |
with: | |
file: ./coverage.xml | |
fail_ci_if_error: true | |
env: | |
CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }} | |
conda-noarch-build: | |
runs-on: ubuntu-latest | |
outputs: | |
version: ${{ steps.version.outputs.version }} | |
defaults: | |
run: | |
shell: bash -l {0} | |
steps: | |
- uses: actions/checkout@v4 | |
with: | |
fetch-depth: 0 | |
- uses: conda-incubator/setup-miniconda@v3 | |
with: | |
auto-update-conda: true | |
auto-activate-base: true | |
channel-priority: flexible | |
miniforge-variant: Miniforge3 | |
- name: install common conda dependencies | |
run: mamba install -n base -c conda-forge conda-build setuptools_scm -y | |
- name: Cache Conda Packages | |
uses: actions/cache@v4 | |
with: | |
path: | | |
pkgs/noarch | |
pkgs/channeldata.json | |
key: ${{ github.sha }}-packages | |
- id: version | |
run: | | |
vers=$( python setup.py --version ) | |
echo "version=${vers}" >> $GITHUB_OUTPUT | |
- name: Linux Conda Build Test | |
run: | | |
mkdir -p ./pkgs/noarch | |
conda build -c conda-forge conda-recipe --no-test --output-folder ./pkgs | |
test-build-conda-packages: | |
needs: [conda-noarch-build] | |
strategy: | |
fail-fast: false | |
matrix: | |
os: [macos-latest, windows-latest, ubuntu-latest] | |
runs-on: ${{ matrix.os }} | |
env: | |
TIKTORCH_PACKAGE_NAME: tiktorch-${{ needs.conda-noarch-build.outputs.version }}-py_0.tar.bz2 | |
steps: | |
# Use GNU tar instead of BSD tar on Windows | |
- name: "Use GNU tar instead of BSD tar" | |
if: matrix.os == 'windows-latest' | |
shell: cmd | |
run: echo C:\Program Files\Git\usr\bin>>"%GITHUB_PATH%" | |
- name: Checkout code | |
uses: actions/checkout@v4 | |
with: | |
fetch-depth: 0 | |
- uses: conda-incubator/setup-miniconda@v3 | |
with: | |
auto-update-conda: true | |
auto-activate-base: true | |
channel-priority: flexible | |
miniforge-variant: Miniforge3 | |
- name: install common conda dependencies | |
run: mamba install -n base -c conda-forge conda-build setuptools_scm -y | |
- name: Cache Conda Packages | |
uses: actions/cache@v4 | |
with: | |
path: | | |
pkgs/noarch | |
pkgs/channeldata.json | |
key: ${{ github.sha }}-packages | |
enableCrossOsArchive: true | |
- name: Linux Test | |
if: matrix.os == 'ubuntu-latest' | |
shell: bash -l {0} | |
run: | | |
conda build --test --override-channels \ | |
-c ./pkgs -c pytorch -c ilastik-forge -c conda-forge \ | |
./pkgs/noarch/${TIKTORCH_PACKAGE_NAME} | |
- name: macOS Test | |
if: matrix.os == 'macos-latest' | |
shell: bash -l {0} | |
run: | | |
conda build --test --override-channels \ | |
-c ./pkgs -c pytorch -c ilastik-forge -c conda-forge \ | |
./pkgs/noarch/${TIKTORCH_PACKAGE_NAME} | |
- name: Windows Test | |
if: matrix.os == 'windows-latest' | |
# HACK: due to a bug in conda-build need to point to | |
# libarchive explicitly. | |
# https://github.com/conda/conda/issues/12563#issuecomment-1494264704 | |
env: | |
LIBARCHIVE: C:\Miniconda\Library\bin\archive.dll | |
shell: cmd /C CALL {0} | |
run: | | |
conda build --test --override-channels ^ | |
-c %CD%\pkgs -c pytorch -c ilastik-forge -c conda-forge ^ | |
.\pkgs\noarch\%TIKTORCH_PACKAGE_NAME% |