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run_tests_win.yml
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name: Run the tests
on: [pull_request]
env:
PREFIX_WINDOWS: C:\Miniconda3\envs\cocofest
jobs:
build:
strategy:
fail-fast: false
matrix:
os: [windows-latest]
shard: [1, 2]
name: Tests on ${{ matrix.os }}-shard ${{ matrix.shard }}
runs-on: ${{ matrix.os }}
defaults:
run:
shell: bash -l {0}
steps:
- name: Set prefix windows
run: |
echo "PREFIX=${{ env.PREFIX_WINDOWS }}" >> $GITHUB_ENV
if: matrix.os == 'windows-latest'
- name: Checkout code
uses: actions/checkout@v3
- name: Setup environment
uses: conda-incubator/setup-miniconda@v2
with:
miniforge-variant: Mambaforge
miniforge-version: latest
use-mamba: true
activate-environment: cocofest
environment-file: environment.yml
- name: Print mamba info
run: |
mamba info
mamba list
- name: Install bioptim on Windows
run: |
pwd
cd external
./bioptim_install_windows.sh 4 ${{ env.PREFIX_WINDOWS }}
cd ..
- name: Install extra dependencies
run: mamba install pytest-cov black pytest pytest-cov codecov packaging -cconda-forge
- name: Run tests with code coverage
run: pytest -v --color=yes --cov-report term-missing --cov=cocofest --cov-report=xml:coverage.xml tests/shard${{ matrix.shard }}
- name: Archive coverage report
id: archive
uses: actions/upload-artifact@v3
with:
name: coverage${{ matrix.shard }}
path: |
coverage.xml
.coverage
merge-coverage:
needs: build
runs-on: windows-latest
defaults:
run:
shell: bash -l {0}
steps:
- name: Set prefix windows
run: |
echo "PREFIX=${{ env.PREFIX_WINDOWS }}" >> $GITHUB_ENV
- name: Checkout code
uses: actions/checkout@v3
- name: Setup environment
uses: conda-incubator/setup-miniconda@v2
with:
miniforge-variant: Mambaforge
miniforge-version: latest
use-mamba: true
activate-environment: cocofest
environment-file: environment.yml
- name: Print mamba info
run: |
mamba info
- name: Install bioptim on Windows
run: |
pwd
cd external
./bioptim_install_windows.sh 4 ${{ env.PREFIX_WINDOWS }}
cd ..
- name: Install extra dependencies
run: pip install coverage
- name: Download all workflow run artifacts
id: download
uses: actions/download-artifact@v3
- name: Rename coverage files
run: |
for shard in {1,2}; do
pwd; ls -a -l
mv coverage${shard}/.coverage* .coverage${shard}
pwd; ls -a -l
mv coverage${shard}/coverage.xml coverage${shard}.xml
done
# for shard in {1,2}; do
# mv coverage${shard}/coverage.xml coverage${shard}.xml
# pwd; ls -a -l
# mv coverage${shard}.xml/.coverage* .coverage${shard}
- name: Show current dir content
run: pwd; ls -a -l
- name: Merge coverage reports
run: coverage combine .coverage1 .coverage2
- name: Show current dir content with new .coverage file
run: pwd; ls -a
- name: Generate XML report
run: |
coverage xml
coverage report -m
- name: Upload coverage to Codecov
uses: codecov/codecov-action@v2
with:
file: ./coverage.xml
flags: unittests
fail_ci_if_error: true
verbose: true
token: ${{ secrets.CODECOV_TOKEN }}