diff --git a/.github/workflows/test_pipeline.yml b/.github/workflows/test_pipeline.yml index b062e7d..a37001a 100644 --- a/.github/workflows/test_pipeline.yml +++ b/.github/workflows/test_pipeline.yml @@ -137,16 +137,17 @@ jobs: # uses: mxschmitt/action-tmate@v3 - name: Snakemake workflow - run: | - source $CONDA/bin/activate - conda activate qcd_env_test - snakemake -s QCD.smk -p --use-conda --use-singularity --conda-frontend conda --configfile .test/config/config.yaml --latency-wait 1000 --cores 4 + # run: | + # source $CONDA/bin/activate + # conda activate qcd_env_test + # snakemake -s QCD.smk -p --use-conda --use-singularity --conda-frontend conda --configfile .test/config/config.yaml --latency-wait 1000 --cores 4 # uses: snakemake/snakemake-github-action@v1.25.1 - # with: - # directory: '.' - # snakefile: 'QCD.smk' - # # stagein: ./mconfig --without-suid && \ - # # make -C ./builddir && \ - # # make -C ./builddir install - # args: '--cores 4 --use-conda --use-docker --use-envmodules --conda-cleanup-pkgs cache -j 999 --conda-frontend conda --configfile .test/config/config.yaml --latency-wait 1000 --singularity-args "--fakeroot"' + with: + directory: '.' + snakefile: 'QCD.smk' + # stagein: ./mconfig --without-suid && \ + # make -C ./builddir && \ + # make -C ./builddir install + task: 'containerize' + args: '--cores 4 --use-conda --use-singularity --conda-cleanup-pkgs cache -j 999 --conda-frontend conda --configfile .test/config/config.yaml --latency-wait 1000' #run: echo "🍏 This job's status is ${{ job.status }}."