Second order sdc (#345) #1443
Workflow file for this run
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name: CI pipeline for pySDC | |
on: | |
push: | |
pull_request: | |
schedule: | |
- cron: '1 5 * * 1' | |
jobs: | |
lint: | |
runs-on: ubuntu-latest | |
env: | |
YML: 'etc/environment-lint.yml' | |
defaults: | |
run: | |
shell: bash -l {0} | |
steps: | |
- name: Checkout | |
uses: actions/checkout@v1 | |
- name: Install Conda environment with Micromamba | |
uses: mamba-org/setup-micromamba@v1 | |
with: | |
environment-file: ${{ env.YML }} | |
- name: Code reformatting with black | |
run: | | |
black pySDC --check --diff --color | |
- name: Linting with flakeheaven | |
run: | | |
flakeheaven lint --benchmark pySDC | |
# mirror_to_gitlab: | |
# runs-on: ubuntu-latest | |
# steps: | |
# - name: Checkout | |
# uses: actions/checkout@v1 | |
# - name: Mirror | |
# uses: jakob-fritz/github2lab_action@main | |
# env: | |
# MODE: 'mirror' # Either 'mirror', 'get_status', or 'both' | |
# GITLAB_TOKEN: ${{ secrets.GITLAB_SECRET_H }} | |
# FORCE_PUSH: "true" | |
# GITLAB_HOSTNAME: "codebase.helmholtz.cloud" | |
# GITLAB_PROJECT_ID: "3525" | |
# GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
user_cpu_tests_linux: | |
runs-on: ubuntu-latest | |
strategy: | |
matrix: | |
python: ['3.7', '3.8', '3.9', '3.10'] | |
env: ['base', 'fenics', 'mpi4py', 'petsc'] | |
defaults: | |
run: | |
shell: bash -l {0} | |
steps: | |
- name: Checkout | |
uses: actions/checkout@v3 | |
- name: Install Conda environment with Micromamba | |
uses: mamba-org/setup-micromamba@v1 | |
with: | |
environment-file: "etc/environment-${{ matrix.env }}.yml" | |
create-args: >- | |
python=${{ matrix.python }} | |
- name: Run pytest for CPU stuff | |
run: | | |
echo "print('Loading sitecustomize.py...') | |
import coverage | |
coverage.process_startup() " > sitecustomize.py | |
coverage run -m pytest --continue-on-collection-errors -v --durations=0 pySDC/tests -m ${{ matrix.env }} | |
- name: Make coverage report | |
run: | | |
mv data data_${{ matrix.python }} | |
coverage combine | |
mv .coverage coverage_${{ matrix.env }}_${{ matrix.python }}.dat | |
- name: Uploading artifacts | |
uses: actions/upload-artifact@v3 | |
if: matrix.python == '3.10' | |
with: | |
name: cpu-test-artifacts | |
path: | | |
data_3.10 | |
coverage_${{ matrix.env }}_3.10.dat | |
user_libpressio_tests: | |
runs-on: ubuntu-latest | |
container: | |
image: brownbaerchen/libpressio:amd64_2 | |
volumes: | |
- ${{ github.workspace }}:/pySDC | |
defaults: | |
run: | |
shell: bash -l {0} | |
steps: | |
- name: Checkout | |
uses: actions/checkout@v3 | |
- name: Install pySDC and pytest | |
run: | | |
source /pySDC/pySDC/projects/compression/Docker/install_pySDC.sh | |
- name: Run pytest | |
run: | | |
source /opt/spack/share/spack/setup-env.sh | |
spack load libpressio | |
coverage run -m pytest --continue-on-collection-errors -v --durations=0 pySDC/tests -m libpressio | |
- name: Make coverage report | |
run: | | |
source /opt/spack/share/spack/setup-env.sh | |
spack load libpressio | |
mv data data_libpressio | |
coverage combine | |
mv .coverage coverage_libpressio_3.10.dat | |
- name: Upload artifacts | |
uses: actions/upload-artifact@v3 | |
with: | |
name: cpu-test-artifacts | |
path: | | |
data_libpressio | |
coverage_libpressio_3.10.dat | |
user_cpu_tests_macos: | |
runs-on: macos-12 | |
strategy: | |
matrix: | |
env: ['base', 'fenics', 'mpi4py', 'petsc'] | |
defaults: | |
run: | |
shell: bash -l {0} | |
steps: | |
- name: Checkout | |
uses: actions/checkout@v3 | |
- name: Install Conda environment with Micromamba | |
uses: mamba-org/setup-micromamba@v1 | |
with: | |
environment-file: "etc/environment-${{ matrix.env }}.yml" | |
- name: Run pytest for CPU stuff | |
run: | | |
pytest --continue-on-collection-errors -v --durations=0 pySDC/tests -m ${{ matrix.env }} | |
# wait_for_gitlab: | |
# runs-on: ubuntu-latest | |
# needs: | |
# - mirror_to_gitlab | |
# steps: | |
# - name: Wait | |
# uses: jakob-fritz/github2lab_action@main | |
# env: | |
# MODE: 'get_status' # Either 'mirror', 'get_status', or 'both' | |
# GITLAB_TOKEN: ${{ secrets.GITLAB_SECRET_H }} | |
# FORCE_PUSH: "true" | |
# GITLAB_HOSTNAME: "codebase.helmholtz.cloud" | |
# GITLAB_PROJECT_ID: "3525" | |
# GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
# # - name: Get and prepare artifacts | |
# # run: | | |
# # pipeline_id=$(curl --header "PRIVATE-TOKEN: ${{ secrets.GITLAB_SECRET_H }}" --silent "https://gitlab.hzdr.de/api/v4/projects/3525/repository/commits/${{ github.head_ref || github.ref_name }}" | jq '.last_pipeline.id') | |
# # job_id=$(curl --header "PRIVATE-TOKEN: ${{ secrets.GITLAB_SECRET_H }}" --silent "https://gitlab.hzdr.de/api/v4/projects/3525/pipelines/$pipeline_id/jobs" | jq '.[] | select( .name == "bundle" ) | select( .status == "success" ) | .id') | |
# # curl --output artifacts.zip "https://gitlab.hzdr.de/api/v4/projects/3525/jobs/$job_id/artifacts" | |
# # rm -rf data | |
# # unzip artifacts.zip | |
# # ls -ratl | |
post-processing: | |
runs-on: ubuntu-latest | |
if: ${{ github.repository_owner == 'Parallel-in-Time'}} | |
needs: | |
- lint | |
- user_cpu_tests_linux | |
- user_libpressio_tests | |
# - wait_for_gitlab | |
defaults: | |
run: | |
shell: bash -l {0} | |
steps: | |
- name: Checkout | |
uses: actions/checkout@v3 | |
- name: Install Conda environment with Micromamba | |
uses: mamba-org/setup-micromamba@v1 | |
with: | |
environment-file: "etc/environment-base.yml" | |
- name: Downloading artifacts | |
uses: actions/download-artifact@v3 | |
with: | |
path: . | |
- name: Prepare artifacts | |
run: | | |
ls -artl cpu-test-artifacts | |
cp cpu-test-artifacts/data_3.10/* data/. | |
python -m coverage combine cpu-test-artifacts/coverage_*_3.10.dat | |
python -m coverage xml | |
python -m coverage html | |
- name: Generate Coverage badge | |
run: | | |
pip install genbadge[all] | |
genbadge coverage -i coverage.xml -o htmlcov/coverage-badge.svg | |
- name: Upload coverage reports to Codecov | |
uses: codecov/codecov-action@v3 | |
# - name: Generate benchmark report | |
# uses: pancetta/github-action-benchmark@v1 | |
# if: ${{ (!contains(github.event.head_commit.message, '[CI-no-benchmarks]')) && (github.event_name == 'push') }} | |
# with: | |
# name: pySDC Benchmark with pytest-benchmark | |
# tool: 'pytest' | |
# output-file-path: benchmarks/output.json | |
# auto-push: false | |
# skip-fetch-gh-pages: true | |
# benchmark-data-dir-path: bench/${{ github.head_ref || github.ref_name }} | |
# github-token: ${{ secrets.GITHUB_TOKEN }} | |
# | |
# - name: Push benchmark data | |
# uses: dmnemec/copy_file_to_another_repo_action@main | |
# if: "!contains(github.event.head_commit.message, '[CI-no-benchmarks]')" | |
# env: | |
# API_TOKEN_GITHUB: ${{ secrets.BENCHMARK_BOT }} | |
# with: | |
# source_file: 'bench/${{ github.head_ref || github.ref_name }}' | |
# destination_repo: 'Parallel-in-Time/pySDC-benchmarks' | |
# user_email: '[email protected]' | |
# user_name: 'pancetta' | |
- name: Build html I | |
run: | | |
chmod u+x ./docs/update_apidocs.sh | |
./docs/update_apidocs.sh | |
sphinx-build -b html docs/source docs/build/html | |
mkdir -p docs/build/html/coverage | |
mv htmlcov/* docs/build/html/coverage/. | |
# - name: Build html II | |
# if: "!contains(github.event.head_commit.message, '[CI-no-benchmarks]')" | |
# run: | | |
# mkdir -p docs/build/html/benchmarks | |
# cp -r bench/${{ github.head_ref || github.ref_name }}/* docs/build/html/benchmarks/. | |
- name: Store docs | |
uses: actions/upload-artifact@v3 | |
with: | |
name: docs | |
path: docs/build/html | |
- name: Deploy 🚀 | |
uses: JamesIves/github-pages-deploy-action@v4 | |
if: ${{ github.event_name == 'push' && github.repository_owner == 'Parallel-in-Time' && github.ref == 'refs/heads/master' }} | |
with: | |
branch: gh-pages # The branch the action should deploy to. | |
folder: docs/build/html # The folder the action should deploy. | |
# spawn_gitlab_and_postprocess: | |
# runs-on: ubuntu-latest | |
# | |
## needs: | |
## - lint | |
# | |
# defaults: | |
# run: | |
# shell: bash -l {0} | |
# | |
# env: | |
# GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
# | |
# steps: | |
# - name: Checkout | |
# uses: actions/checkout@v3 | |
# with: | |
# fetch-depth: 0 | |
# ref: ${{ github.event.pull_request.head.sha }} | |
# | |
# - name: Checkout benchmark repository | |
# uses: actions/checkout@v3 | |
# if: ${{ github.event_name == 'push' }} | |
# with: | |
# repository: Parallel-in-Time/pySDC-benchmarks | |
# token: ${{ secrets.BENCHMARK_BOT }} | |
# path: bench | |
# ref: main | |
# | |
# - name: Install Conda environment with Micromamba | |
# uses: mamba-org/provision-with-micromamba@main | |
# with: | |
# environment-file: etc/environment-base.yml | |
# | |
# - name: Mirror + trigger CI | |
# uses: SvanBoxel/gitlab-mirror-and-ci-action@master | |
# with: | |
# args: "https://gitlab.hzdr.de/r.speck/pysdc" | |
# env: | |
# FORCE_PUSH: "true" | |
# GITLAB_HOSTNAME: "gitlab.hzdr.de" | |
# GITLAB_USERNAME: ${{ secrets.GITLAB_SECRET_USER }} | |
# GITLAB_PASSWORD: ${{ secrets.GITLAB_SECRET_PASS }} | |
# GITLAB_PROJECT_ID: "3525" | |
# GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
# | |
# - name: Get and prepare artifacts | |
# run: | | |
# pipeline_id=$(curl --header "PRIVATE-TOKEN: ${{ secrets.GITLAB_SECRET_H }}" --silent "https://gitlab.hzdr.de/api/v4/projects/3525/repository/commits/${{ github.head_ref || github.ref_name }}" | jq '.last_pipeline.id') | |
# job_id=$(curl --header "PRIVATE-TOKEN: ${{ secrets.GITLAB_SECRET_H }}" --silent "https://gitlab.hzdr.de/api/v4/projects/3525/pipelines/$pipeline_id/jobs" | jq '.[] | select( .name == "bundle" ) | select( .status == "success" ) | .id') | |
# curl --output artifacts.zip "https://gitlab.hzdr.de/api/v4/projects/3525/jobs/$job_id/artifacts" | |
# rm -rf data | |
# unzip artifacts.zip | |
# | |