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Add note to README about NERSC installation (#103) #94

Add note to README about NERSC installation (#103)

Add note to README about NERSC installation (#103) #94

Workflow file for this run

name: Tests
on:
push:
branches: [ master ]
pull_request:
branches: [ master ]
concurrency:
group: ${{ github.workflow }}-${{ github.ref }}
cancel-in-progress: true
env:
FORCE_COLOR: 3
CONDA_ENV: ./environment.yml
jobs:
lint:
name: Run Linters
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 0
- name: Run black
uses: psf/black@stable
- name: Run flake8
uses: py-actions/flake8@v2
with:
path: "tjpcov tests"
tests:
needs: lint
name: Check Python ${{ matrix.python-version }} on ${{ matrix.runs-on }}
runs-on: ${{ matrix.runs-on }}
defaults:
run:
# IMPORTANT: this is needed to make sure that the conda environment is auto activated
shell: bash -el {0}
strategy:
fail-fast: false
matrix:
python-version: ["3.8", "3.11"]
runs-on: [ubuntu-latest, macos-latest]
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 0
- name: Set up mamba
uses: conda-incubator/setup-miniconda@v2
with:
channels: conda-forge
python-version: ${{ matrix.python-version }}
show-channel-urls: true
auto-update-conda: true
use-mamba: true
activate-environment: tjpcov
miniforge-version: latest
miniforge-variant: Mambaforge
- name: Cache Date
id: get-date
run: echo "today=$(/bin/date -u '+%Y%m%d')" >> $GITHUB_OUTPUT
- name: Check for cached environment
uses: actions/cache@v3
id: cache
env:
# Increase this value to reset cache if etc/example-environment.yml has not changed
CACHE_NUMBER: 0
with:
path: ${{env.CONDA}}/envs
key:
${{runner.os}}.${{runner.arch}}.mamba-py.${{matrix.python-version}}.${{hashFiles('pyproject.toml')}}.${{hashFiles('environment.yml')}}.${{steps.get-date.outputs.today}}.${{env.CACHE_NUMBER}}
- name: Install environment packages
if: steps.cache.outputs.cache-hit != 'true'
run: |
export MAMBA_NO_BANNER=1
mamba env update --file ${{ env.CONDA_ENV }}
- name: Install TJPCov
run: |
pip install .[nmt] --no-deps
- name: Install mpi4py into cache
# If this is cached, re-add mpi4py
if: steps.cache.outputs.cache-hit == 'true'
run: |
mamba install -y openmpi
pip install -U mpi4py --no-cache-dir --no-deps
- name: Run Tests
run: coverage run --source=tjpcov -m pytest -vv tests/
- name: Run MPI Tests (OpenMPI)
run: |
mpiexec -n 2 pytest -vv tests/test_mpi.py
mamba remove -y openmpi
pip uninstall -y mpi4py
- name: Run MPI Tests (mpich)
run: |
mamba install -y mpich
pip install -U mpi4py --no-cache-dir --no-deps
mpiexec -n 2 pytest -vv tests/test_mpi.py
mamba remove -y mpich
pip uninstall -y mpi4py
- name: Collect coverage report
uses: coverallsapp/github-action@v2
with:
github-token: ${{ secrets.GITHUB_TOKEN }}
flag-name: run-${{ join(matrix.*, '-') }}
parallel: true
finish:
needs: tests
name: Collect all coverage reports and publish to coveralls.io
runs-on: ubuntu-latest
steps:
- name: Collect all coverage reports and publish to coveralls.io
uses: coverallsapp/github-action@master
with:
carryforward: "run-3.8-ubuntu-latest,run-3.11-ubuntu-latest,run-3.8-macos-latest,run-3.11-macos-latest"
github-token: ${{ secrets.GITHUB_TOKEN }}
parallel-finished: true