[FIX] update version in container #1176
Workflow file for this run
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| --- | |
| name: 'CLI: tests' | |
| on: | |
| push: | |
| branches: | |
| - main | |
| pull_request: | |
| branches: | |
| - main | |
| jobs: | |
| tests_cli: | |
| runs-on: ubuntu-22.04 | |
| if: github.repository_owner == 'cpp-lln-lab' | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| python-version: ['3.8', '3.9', '3.10', '3.11', '3.12'] | |
| steps: | |
| - name: Install dependencies | |
| run: | | |
| sudo apt-get -y -qq update | |
| sudo apt-get -y install octave liboctave-dev | |
| - name: Info | |
| run: octave --version | |
| - uses: actions/setup-node@v4 | |
| with: | |
| node-version: 18 | |
| - uses: actions/setup-python@v5 | |
| name: Set up Python ${{ matrix.python-version }} | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Clone bidspm | |
| uses: actions/checkout@v4 | |
| with: | |
| submodules: recursive | |
| fetch-depth: 0 | |
| - name: Install validators | |
| run: | | |
| make install | |
| pip install .[test] | |
| - name: Run tests and generate coverage report | |
| run: | | |
| coverage erase | |
| coverage run --source src -m pytest | |
| coverage xml | |
| # - name: Code coverage | |
| # uses: codecov/codecov-action@v4 | |
| # with: | |
| # file: coverage.xml | |
| # flags: cli | |
| # name: codecov-cli | |
| # fail_ci_if_error: false | |
| boutiques: | |
| runs-on: ubuntu-22.04 | |
| if: github.repository_owner == 'cpp-lln-lab' | |
| steps: | |
| - name: Clone bidspm | |
| uses: actions/checkout@v4 | |
| with: | |
| submodules: recursive | |
| fetch-depth: 0 | |
| - uses: actions/setup-node@v4 | |
| with: | |
| node-version: 18 | |
| - uses: actions/setup-python@v5 | |
| name: Set up Python | |
| with: | |
| python-version: '3.12' | |
| - name: Install dependencies | |
| run: | | |
| sudo apt-get -y -qq update | |
| sudo apt-get -y install unzip wget git-annex | |
| - name: Install datalad | |
| run: | | |
| python -m pip install --upgrade pip setuptools | |
| pip install datalad | |
| - name: Get data | |
| run: | | |
| cd demos/openneuro/ | |
| make data_ds000114_verbal | |
| - name: Install SPM | |
| run: git clone https://github.com/spm/spm12.git --depth 1 | |
| - name: Install octave | |
| run: | | |
| sudo apt-get -y -qq update | |
| sudo apt-get -y install \ | |
| octave \ | |
| liboctave-dev\ | |
| octave-common \ | |
| octave-io \ | |
| octave-image \ | |
| octave-signal \ | |
| octave-statistics | |
| - name: Compile SPM | |
| run: | | |
| make -C spm12/src PLATFORM=octave distclean | |
| make -C spm12/src PLATFORM=octave | |
| make -C spm12/src PLATFORM=octave install | |
| octave $OCTFLAGS --eval "addpath(fullfile(pwd, 'spm12')); savepath();" | |
| - name: Info | |
| run: octave --version | |
| - name: Install | |
| run: | | |
| make install | |
| pip install boutiques | |
| - name: Run via boutiques | |
| run: | | |
| bosh exec launch --no-container boutiques/bidspm_3.1.1.json boutiques/invocation_smooth.json | |
| bosh exec launch --no-container boutiques/bidspm_3.1.1.json boutiques/invocation_stats.json |