Update pysam to 0.22.0 #96
Workflow file for this run
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name: Build and upload wheels | |
on: [push, pull_request] | |
env: | |
CIBW_BUILD: 'cp37-* cp38-* cp39-* cp310-* cp311-*' | |
CIBW_SKIP: '*-musllinux_*' | |
concurrency: | |
# Group runs by PR, but keep runs on the default branch separate | |
# because we do not want to cancel wheel uploads | |
group: pr-${{ github.ref == 'refs/heads/main' && github.run_number || github.ref }} | |
cancel-in-progress: true | |
jobs: | |
setup: | |
runs-on: ubuntu-latest | |
outputs: | |
recipes_found: ${{ steps.recipes_changes.outputs.recipes_found }} | |
steps: | |
- uses: actions/checkout@v3 | |
with: | |
fetch-depth: 0 | |
# The range of commits to check for changes is: | |
# - `origin/main...` for all events happening on a feature branch | |
# - for events on the main branch we compare against the sha before the event | |
# (note that this does not work for feature branch events since we want all | |
# commits on the feature branch and not just the commits of the last event) | |
# - for pull requests we compare against the 1st ancestor, given the current | |
# HEAD is the merge between the PR branch and the base branch | |
- name: Set commit range | |
id: commit_range_step | |
run: | | |
if [ "${{ github.event_name }}" = 'push' -a "${{github.ref}}" != 'refs/heads/main' ]; then | |
# push to a feature branch | |
git fetch origin main | |
commit_range='origin/main...' | |
elif [ "${{ github.event_name }}" = 'push' -a "${{ github.ref }}" = 'refs/heads/main' ]; then | |
# push to the main branch, e.g. merge | |
commit_range="${{ github.event.before }}.." | |
else | |
# pull request | |
commit_range='HEAD~..' | |
fi | |
echo "commit_range=$commit_range" >> $GITHUB_OUTPUT | |
- name: Detect changes to recipes/ | |
id: recipes_changes | |
run: | | |
touch duplicated_recipe_folders.txt | |
while read op path; do | |
case "$op" in | |
A|M) | |
echo "${path}" | cut -d '/' -f1,2 >> duplicated_recipe_folders.txt | |
;; | |
esac | |
done < <(git diff --color=never --name-status '${{ steps.commit_range_step.outputs.commit_range }}' -- recipes/) | |
sort -u duplicated_recipe_folders.txt > recipe_list.txt | |
cat recipe_list.txt | |
if [ -s recipe_list.txt ]; then | |
recipes_found=true | |
else | |
recipes_found=false | |
fi | |
echo "recipes_found=$recipes_found" >> $GITHUB_OUTPUT | |
- uses: actions/upload-artifact@v3 | |
with: | |
name: recipe_list | |
path: recipe_list.txt | |
build: | |
needs: setup | |
if: ${{ needs.setup.outputs.recipes_found == 'true' }} | |
strategy: | |
matrix: | |
os: [ubuntu-latest, macos-latest] | |
runs-on: ${{ matrix.os }} | |
steps: | |
- uses: actions/checkout@v3 | |
- uses: actions/setup-python@v4 | |
with: | |
python-version: '3.11' | |
- uses: actions/download-artifact@v3 | |
with: | |
name: recipe_list | |
path: ../workflow_artifacts/ | |
- name: Install required Python packages | |
run: python -m pip install build cibuildwheel PyYAML requests | |
- name: Build wheels | |
run: | | |
while read -r folder; do | |
python3 wheel_builder.py "$folder"; | |
done < ../workflow_artifacts/recipe_list.txt | |
- uses: actions/upload-artifact@v3 | |
with: | |
name: wheelhouse | |
path: wheelhouse/ | |
deploy: | |
name: Deploy Wheels | |
needs: build | |
if: ${{ github.ref == 'refs/heads/main' && github.event_name == 'push' && github.repository_owner == 'galaxyproject' }} | |
runs-on: ubuntu-latest | |
steps: | |
- uses: actions/download-artifact@v3 | |
with: | |
name: wheelhouse | |
path: wheelhouse/ | |
- uses: actions/setup-python@v4 | |
with: | |
python-version: '3.11' | |
- name: Setup deploy environment | |
run: python3 -m pip install s3pypi | |
- name: Deploy wheels | |
run: s3pypi ./wheelhouse/* --bucket "$S3_BUCKET" --region "$S3_REGION" --put-root-index --unsafe-s3-website --acl 'public-read' --force | |
env: | |
AWS_ACCESS_KEY_ID: ${{ secrets.AWS_ACCESS_KEY_ID }} | |
AWS_SECRET_ACCESS_KEY: ${{ secrets.AWS_SECRET_ACCESS_KEY }} | |
S3_BUCKET: galaxy-wheels | |
S3_REGION: us-east-2 |