Re-declare start variable. #4
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| name: Tests | |
| on: | |
| pull_request: | |
| push: | |
| branches: | |
| - main | |
| - idm-ibx-calculations | |
| jobs: | |
| pre-commit: | |
| name: Lint | |
| runs-on: ubuntu-18.04 | |
| steps: | |
| - name: Cancel Previous Runs | |
| uses: styfle/[email protected] | |
| with: | |
| access_token: ${{ github.token }} | |
| - uses: actions/checkout@v2 | |
| - uses: actions/setup-python@v2 | |
| - name: install clang-format | |
| if: steps.clang_format.outputs.cache-hit != 'true' | |
| run: | | |
| sudo apt-get remove -y clang-6.0 libclang-common-6.0-dev libclang1-6.0 libllvm6.0 | |
| sudo apt-get autoremove | |
| sudo apt-get install clang-format clang-format-6.0 | |
| - uses: pre-commit/[email protected] | |
| test: | |
| name: Python | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| python: [ 3.8, 3.9, "3.10", 3.11 ] | |
| os: [ macos-latest, ubuntu-latest, windows-latest ] | |
| defaults: | |
| run: | |
| shell: bash | |
| steps: | |
| - name: Cancel Previous Runs | |
| uses: styfle/[email protected] | |
| with: | |
| access_token: ${{ github.token }} | |
| - name: Checkout | |
| uses: actions/checkout@v2 | |
| with: | |
| submodules: true | |
| - name: Cache conda and dependancies | |
| id: cache | |
| uses: actions/cache@v2 | |
| with: | |
| path: | | |
| c:\Miniconda\envs\anaconda-client-env | |
| /usr/share/miniconda/envs/anaconda-client-env | |
| ~/osx-conda | |
| ~/.profile | |
| key: ${{ runner.os }}-${{ matrix.python}}-conda-v11-${{ hashFiles('python/requirements/CI-tests-conda/requirements.txt') }}-${{ hashFiles('python/requirements/CI-tests-pip/requirements.txt') }} | |
| - name: Install Conda | |
| uses: conda-incubator/setup-miniconda@v2 | |
| if: steps.cache.outputs.cache-hit != 'true' | |
| with: | |
| activate-environment: anaconda-client-env | |
| python-version: ${{ matrix.python }} | |
| channels: conda-forge | |
| channel-priority: strict | |
| auto-update-conda: true | |
| use-only-tar-bz2: true | |
| - name: Fix windows symlinks | |
| working-directory: python | |
| if: matrix.os == 'windows-latest' | |
| run: | | |
| rm -r lib | |
| mkdir lib | |
| cp -r --dereference ../c/subprojects lib/. | |
| cp -r --dereference ../c/tskit lib/. | |
| cp ../c/tskit.h lib/. | |
| - name: Fix windows .profile | |
| if: steps.cache.outputs.cache-hit != 'true' && matrix.os == 'windows-latest' | |
| run: | | |
| cp ~/.bash_profile ~/.profile | |
| - name: Install conda deps | |
| if: steps.cache.outputs.cache-hit != 'true' | |
| shell: bash -l {0} #We need a login shell to get conda | |
| run: | | |
| conda install --yes --file=python/requirements/CI-tests-conda/requirements.txt | |
| # Install pre-release from non standard label until msprime | |
| # 1.0 is tagged. | |
| conda install -c conda-forge/label/msprime_rc msprime | |
| - name: Install pip deps | |
| if: steps.cache.outputs.cache-hit != 'true' | |
| shell: bash -l {0} | |
| run: pip install -r python/requirements/CI-tests-pip/requirements.txt | |
| - name: Fix OSX Cache Write #OSX Won't let the cache restore due to file perms | |
| if: steps.cache.outputs.cache-hit != 'true' && matrix.os == 'macos-latest' | |
| run: | | |
| cp -r /usr/local/miniconda/envs/anaconda-client-env ~/osx-conda | |
| - name: Fix OSX Cache Restore | |
| if: steps.cache.outputs.cache-hit == 'true' && matrix.os == 'macos-latest' | |
| run: | | |
| mkdir -p /usr/local/miniconda/envs | |
| sudo cp -r ~/osx-conda /usr/local/miniconda/envs/anaconda-client-env | |
| - name: Build module | |
| working-directory: python | |
| run: | | |
| source ~/.profile | |
| conda activate anaconda-client-env | |
| python setup.py build_ext --inplace | |
| - name: Run tests | |
| working-directory: python | |
| run: | | |
| source ~/.profile | |
| conda activate anaconda-client-env | |
| pytest -xv -n2 | |