Anat Pipelines Tests #103
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: Anat Pipelines Tests | |
| on: | |
| schedule: | |
| - cron: 0 20 * * 4 # every thursday at 8pm | |
| workflow_dispatch: | |
| permissions: | |
| contents: read | |
| jobs: | |
| # test-t1-linear-MacOS: | |
| # runs-on: | |
| # - self-hosted | |
| # - macOS | |
| # timeout-minutes: 120 | |
| # steps: | |
| # - uses: actions/checkout@v5 | |
| # - name: Run tests for t1 linear pipelines | |
| # 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/ants/2.4.4 | |
| # 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/non_regression_anat_t1_linear_mac.xml \ | |
| # --disable-warnings \ | |
| # ./nonregression/pipelines/anat/test_t1_linear.py | |
| # | |
| # test-t1-volume-MacOS: | |
| # runs-on: | |
| # - self-hosted | |
| # - macOS | |
| # timeout-minutes: 720 | |
| # steps: | |
| # - uses: actions/checkout@v5 | |
| # - name: Run tests for t1 volume pipelines | |
| # 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/matlab/2019b | |
| # module load clinica/spm12/r7771 | |
| # 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/non_regression_anat_t1_volume_mac.xml \ | |
| # --disable-warnings \ | |
| # ./nonregression/pipelines/anat/test_t1_volume.py | |
| test-t1-linear-Linux: | |
| runs-on: | |
| - self-hosted | |
| - Linux | |
| - test-runner | |
| timeout-minutes: 120 | |
| steps: | |
| - uses: actions/checkout@v5 | |
| - name: Run tests for t1 linear pipelines | |
| run: | | |
| make env.conda | |
| source /builds/miniconda/etc/profile.d/conda.sh | |
| conda activate "${{ github.workspace }}"/env | |
| source /usr/local/Modules/init/profile.sh | |
| module load clinica/ants/2.4.4 | |
| make install | |
| cd test | |
| poetry run pytest --verbose \ | |
| --working_directory=/mnt/data/ci/working_dir_linux \ | |
| --input_data_directory=/mnt/data_ci \ | |
| --basetemp=/mnt/data/ci/tmp \ | |
| --junitxml=./test-reports/non_regression_anat_t1_linear_linux.xml \ | |
| --disable-warnings \ | |
| ./nonregression/pipelines/anat/test_t1_linear.py | |
| test-t1-volume-Linux: | |
| runs-on: | |
| - self-hosted | |
| - Linux | |
| - test-runner | |
| timeout-minutes: 720 | |
| steps: | |
| - uses: actions/checkout@v5 | |
| - name: Run tests for t1 volume pipelines | |
| run: | | |
| make env.conda | |
| source /builds/miniconda/etc/profile.d/conda.sh | |
| conda activate "${{ 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/non_regression_anat_t1_volume_linux.xml \ | |
| --disable-warnings \ | |
| ./nonregression/pipelines/anat/test_t1_volume.py |