[FIX] ADNI utils load_clinical_csv should avoid hidden files (#1343)
#1075
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| name: Instantiation Tests | |
| on: | |
| push: | |
| branches: ["dev", "maint-*"] | |
| pull_request: | |
| branches: ["dev", "maint-*"] | |
| permissions: | |
| contents: read | |
| concurrency: | |
| group: '${{ github.workflow }} @ ${{ github.event.pull_request.head.label || github.head_ref || github.ref }}' | |
| cancel-in-progress: true | |
| jobs: | |
| test-instantiation-MacOS: | |
| runs-on: | |
| - self-hosted | |
| - macOS | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Run instantiation tests | |
| run: | | |
| make env.conda | |
| source ~/miniconda3/etc/profile.d/conda.sh | |
| conda activate "${{ github.workspace }}"/env | |
| source "$(brew --prefix)/opt/modules/init/bash" | |
| module load clinica.all | |
| make install | |
| cd test | |
| poetry run pytest --verbose \ | |
| --working_directory=/Volumes/data/working_dir_mac \ | |
| --input_data_directory=/Volumes/data_ci \ | |
| --basetemp=/Volumes/data/tmp \ | |
| --junitxml=./test-reports/instantiation_mac.xml \ | |
| --disable-warnings \ | |
| ./instantiation/ | |
| test-instantiation-Linux: | |
| runs-on: | |
| - self-hosted | |
| - Linux | |
| - test-runner | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Run instantiation tests | |
| run: | | |
| make env.conda | |
| source /builds/miniconda/etc/profile.d/conda.sh | |
| conda activate "${{ github.workspace }}"/env | |
| source /usr/local/Modules/init/profile.sh | |
| module load clinica.all | |
| make install | |
| cd test | |
| poetry run pytest --verbose \ | |
| --working_directory=/mnt/data/ci/working_dir_linux \ | |
| --input_data_directory=/mnt/data_ci \ | |
| --basetemp=/mnt/data/ci/tmp \ | |
| --junitxml=./test-reports/instantiation_linux.xml \ | |
| --disable-warnings \ | |
| ./instantiation/ |