Update fv3-jedi, fv3-jedi-data, fv3-jedi-linearmodel from develop as of 2023/11/02 #142
Workflow file for this run
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| name: test-ufs-bundle-pcluster | |
| # Controls when the workflow will run | |
| on: | |
| schedule: | |
| - cron: '0 4 * * *' | |
| pull_request: | |
| # pull request to develop | |
| branches: [develop] | |
| workflow_dispatch: | |
| defaults: | |
| run: | |
| shell: bash | |
| jobs: | |
| test-ufs-bundle: | |
| runs-on: [self-hosted, Linux, X64, pcluster-ci-20230717] | |
| steps: | |
| - name: cleanup | |
| if: ${{ github.event_name == 'schedule' }} | |
| env: | |
| JEDI_ENV: /home/ubuntu/ufs-bundle/jedi_run | |
| run: | | |
| # Remove and prepare run directory | |
| rm -fr ${JEDI_ENV} | |
| mkdir -p ${JEDI_ENV} | |
| cd ${JEDI_ENV} | |
| pwd | |
| ls -lart | |
| - name: checkout | |
| uses: actions/checkout@v3 | |
| # DH* Skip all this, since Skylab CI runs on same system and does that already | |
| # | |
| ## Either this worked, or manually running the docker build as user ubuntu from | |
| ## the ravsamhq/notify-slack-action@v1 action below | |
| #- name: ubuntu-docker | |
| # run: | | |
| # echo "Checking if user ubuntu can run docker" | |
| # if id -nG ubuntu | grep -qw docker; then | |
| # echo "User ubuntu already belongs to group docker" | |
| # else | |
| # echo "Adding user ubuntu to group docker" | |
| # sudo gpasswd -a ubuntu docker | |
| # newgrp docker | |
| # docker run hello-world | |
| # fi | |
| # | |
| #- name: set-credentials | |
| # env: | |
| # GH_USERNAME: ${{ secrets.JCSDABOT_USERNAME }} | |
| # GH_TOKEN: ${{ secrets.JCSDABOT_TOKEN }} | |
| # run: | | |
| # # git config and credentials | |
| # git config --global user.name "Luke Skywalker" | |
| # git config --global user.email "[email protected]" | |
| # git config --global credential.helper store | |
| # touch ~/.git-credentials | |
| # chmod 0700 ~/.git-credentials | |
| # echo "https://$GH_USERNAME:[email protected]" > ~/.git-credentials | |
| # *DH | |
| - name: create-env-setup-script | |
| env: | |
| JEDI_ENV: /home/ubuntu/ufs-bundle/jedi_run | |
| run: | | |
| # In run directory | |
| cd ${JEDI_ENV} | |
| cat <<EOF > setup.sh | |
| #!/bin/bash | |
| echo "Loading ufs-bundle environment using spack-stack-1.5.0" | |
| ulimit -s unlimited | |
| ulimit -c unlimited | |
| source /etc/profile.d/z00_lmod.sh | |
| source /etc/profile.d/z01_lmod.sh | |
| source /opt/intel/oneapi/compiler/2022.1.0/env/vars.sh | |
| module use /mnt/experiments-efs/skylab-v6/spack-stack-1.5.0/envs/unified-env/install/modulefiles/Core | |
| module load stack-intel/2022.1.0 | |
| module load stack-intel-oneapi-mpi/2021.6.0 | |
| module load stack-python/3.10.8 | |
| module load jedi-ufs-env/1.0.0 | |
| module li | |
| export I_MPI_DEBUG=5 | |
| export I_MPI_FABRICS=shm | |
| export I_MPI_PIN_DOMAIN=omp | |
| export KMP_AFFINITY=compact | |
| export KMP_STACKSIZE=2048m | |
| export OMP_NUM_THREADS=1 | |
| export SLURM_EXPORT_ENV=ALL | |
| EOF | |
| - name: clone-build-bundle | |
| env: | |
| JEDI_ENV: /home/ubuntu/ufs-bundle/jedi_run | |
| UFS_BUNDLE_BRANCH_NAME: ${{ github.head_ref || github.ref_name }} | |
| run: | | |
| # In run directory | |
| cd ${JEDI_ENV} | |
| # Set environment | |
| source setup.sh | |
| echo "Using branch ${UFS_BUNDLE_BRANCH_NAME} for ufs-bundle" | |
| if [ -d ufs-bundle ] ; then | |
| echo "Update existing copy of ufs-bundle" | |
| cd ufs-bundle | |
| git remote update | |
| git checkout origin/${UFS_BUNDLE_BRANCH_NAME} | |
| cd .. | |
| else | |
| echo "Check out a fresh copy of ufs-bundle" | |
| git clone -b ${UFS_BUNDLE_BRANCH_NAME} https://github.com/jcsda/ufs-bundle | |
| fi | |
| # UFS_APP=ATM | |
| cd ${JEDI_ENV} | |
| mkdir -p build-atm | |
| cd build-atm | |
| cmake -DUFS_APP=ATM ../ufs-bundle | |
| make update | |
| make -j8 | |
| # Runs mandatory ctests on the head node | |
| ctest -R get_ | |
| ctest -R fv3jedi_setup_ufs_rundir_warmstart | |
| ctest -R fv3jedi_setup_ufs_rundir_coldstart | |
| ctest -R fv3jedi_test_tier1_model_ufs_warmstart | |
| #ctest -R fv3jedi_test_tier1_model_ufs_coldstart | |
| ctest -R fv3jedi_test_tier1_forecast_ufs_warmstart | |
| #ctest -R fv3jedi_test_tier1_forecast_ufs_coldstart | |
| # UFS_APP=ATMAERO | |
| cd ${JEDI_ENV} | |
| mkdir -p build-atmaero | |
| cd build-atmaero | |
| cmake -DUFS_APP=ATMAERO ../ufs-bundle | |
| make update | |
| make -j8 | |
| # Skip those for now - linker errors because of static/dynamic library mix | |
| ## UFS_APP=NG-GODAS | |
| #cd ${JEDI_ENV} | |
| #mkdir -p build-ng-godas | |
| #cd build-ng-godas | |
| #cmake -DUFS_APP=NG-GODAS ../ufs-bundle | |
| #make update | |
| #make -j8 | |
| # | |
| ## UFS_APP=S2S | |
| #cd ${JEDI_ENV} | |
| #mkdir -p build-s2s | |
| #cd build-s2s | |
| #cmake -DUFS_APP=S2S ../ufs-bundle | |
| #make update | |
| #make -j8 | |
| - name: Report Status | |
| if: always() | |
| uses: ravsamhq/notify-slack-action@v1 | |
| env: | |
| SLACK_WEBHOOK_URL: ${{ secrets.ACTION_MONITORING_SLACK }} | |
| with: | |
| # https://www.ravsam.in/blog/send-slack-notification-when-github-actions-fails/#getting-a-webhook-url | |
| # https://www.ravsam.in/blog/collect-form-responses-using-google-apps-script | |
| # https://github.com/marketplace/actions/notify-slack-action | |
| status: ${{ job.status }} | |
| notify_when: 'success,failure,warnings' | |
| notification_title: '{workflow} has {status_message}' | |
| message_format: '{emoji} *{workflow}* {status_message} for branch {branch} in <{repo_url}|{repo}>' | |
| footer: ${{ github.event.pull_request.number || github.event_name || 'workflow dispatched manually' }} | |
| # For testing: only notify user Dom | |
| mention_users: 'U02NLGXF5HV' | |
| mention_users_when: 'failure,warnings' | |
| ## Default: notify channel | |
| #mention_groups: '!channel' | |
| #mention_groups_when: 'failure,warnings' |