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Fold floers25calib back into floers25, and drop the Dy III sample #863

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Fold floers25calib back into floers25, and drop the Dy III sample

Fold floers25calib back into floers25, and drop the Dy III sample #863

Workflow file for this run

.github/workflows/test.yml at bd3a73a
---
name: Test
permissions:
contents: read
on:
push:
merge_group:
schedule:
- cron: 0 13 * * 1
workflow_dispatch:
env:
RUFF_OUTPUT_FORMAT: github
UV_FROZEN: 1
ARTISATOMIC_TESTMODE: 1
jobs:
lint:
name: Format, lint, and type check
runs-on: ubuntu-26.04-arm
steps:
- name: Checkout Code
uses: actions/checkout@v7
with:
fetch-depth: 0
- name: Setup uv
uses: astral-sh/setup-uv@v7
with:
activate-environment: true
- name: Install artisatomic
run: uv sync --compile-bytecode
- name: Run Ruff
if: always()
run: |
uv run -- ruff --version
uv run -- ruff check --exit-non-zero-on-fix --no-fix
- name: Run Ruff Format
if: always()
run: uv run -- ruff format --check --exit-non-zero-on-format
- name: Run pyrefly
if: always()
run: uv run -- pyrefly check --output-format github
- name: Run basedpyright
if: always()
run: uv run -- basedpyright
- name: Run prek pre-commit checks
uses: j178/prek-action@v2.0.6
pytest:
runs-on: ubuntu-26.04-arm
steps:
- name: Checkout Code
uses: actions/checkout@v7
with:
fetch-depth: 0
- name: Setup uv
uses: astral-sh/setup-uv@v7
with:
activate-environment: true
- name: Install artisatomic
run: uv sync --compile-bytecode
- name: Cache CMFGEN atomic data
uses: actions/cache@v6
id: cache-cmfgendata
with:
path: atomic-data-hillier/atomic_21jun23/**
key: atomic-data-hillier/atomic_data_21jun23/files
- name: Download/extract CMFGEN atomic data
if: ${{ steps.cache-cmfgendata.outputs.cache-hit != 'true' }}
working-directory: atomic-data-hillier/
run: source ./setup_cmfgen_data.sh
- name: Test with pytest
run: uv run python3 -m pytest --cov --cov-report=xml:coverage.xml
- name: Upload coverage artifact
if: github.event_name != 'pull_request' || github.event.pull_request.head.repo.full_name == github.repository
uses: actions/upload-artifact@v7
with:
name: coverage-report-python
path: coverage.xml
upload-coverage-python:
needs: pytest
if: ${{ !cancelled() && needs.pytest.result == 'success' && (github.event_name != 'pull_request' || github.event.pull_request.head.repo.full_name
== github.repository) }}
runs-on: ubuntu-latest
permissions:
contents: read
code-quality: write
pull-requests: read
steps:
- name: Download coverage artifact
uses: actions/download-artifact@v8
with:
name: coverage-report-python
- name: Check for a pull request associated with this commit
id: haspr
if: github.ref != 'refs/heads/main'
env:
GH_TOKEN: ${{ github.token }}
run: echo "found=$(gh api "repos/${{ github.repository }}/commits/${{ github.sha }}/pulls" --jq 'length > 0')" >> "$GITHUB_OUTPUT"
- uses: actions/upload-code-coverage@v1
if: github.ref == 'refs/heads/main' || steps.haspr.outputs.found == 'true'
with:
file: coverage.xml
language: Python
label: code-coverage-agent
tests:
strategy:
matrix:
testname: [cmfgen, cmfgen_lowz, floers25, jplt, kurucz, qub]
fail-fast: false
runs-on: ubuntu-26.04-arm
timeout-minutes: 45
name: test ${{ matrix.testname }}
steps:
- name: Checkout Code
uses: actions/checkout@v7
with:
fetch-depth: 0
- name: Setup uv
uses: astral-sh/setup-uv@v7
with:
activate-environment: true
- name: Install artisatomic
run: uv sync --compile-bytecode
# every matrix entry needs this, not just the cmfgen ones: makeartisatomicfiles reads the
# hydrogenic photoionisation tables from HYD/I on any run without -nophixs, so gating this
# on the test name breaks the other jobs as a phixsdata_v2.txt checksum mismatch
- name: Cache CMFGEN atomic data
uses: actions/cache@v6
id: cache-cmfgendata
with:
path: atomic-data-hillier/atomic_21jun23/**
key: atomic-data-hillier/atomic_data_21jun23/files
- name: Download/extract CMFGEN atomic data
if: ${{ steps.cache-cmfgendata.outputs.cache-hit != 'true' }}
working-directory: atomic-data-hillier/
run: source ./setup_cmfgen_data.sh
- name: Cache JPLT atomic data
if: matrix.testname == 'jplt'
uses: actions/cache@v6
with:
path: atomic-data-tanaka-jplt/data_v2.1/**
key: atomic-data-tanaka-jplt-files-v2.1
- name: Download/extract JPLT atomic data
if: matrix.testname == 'jplt'
working-directory: atomic-data-tanaka-jplt/
run: source ./setup_jplt_data.sh
- name: Extract Floers25 atomic data
if: matrix.testname == 'floers25'
working-directory: atomic-data-floers25/
run: tar -xJvf testdata.tar.xz
- name: Generate artis atomic data files
run: |
cp tests/${{ matrix.testname }}/artisatomicionhandlers.json .
uv run makeartisatomicfiles -output_folder tests/${{ matrix.testname }}/output
- name: Checksum output files
working-directory: tests/${{ matrix.testname }}/output
run: |
cat compositiondata.txt
cat atomic_data_logs/*.json
echo
md5sum *.txt
md5sum -c ../checksums.txt
- name: tar and zip output files
if: always()
run: |
tar -cvzf artis_files_${{ matrix.testname }}.tar.gz tests/${{ matrix.testname }}/output/*
- name: Upload output files
if: always()
uses: actions/upload-artifact@v7
with:
name: artis_files_${{ matrix.testname }}.tar.gz
path: artis_files_${{ matrix.testname }}.tar.gz