chore: standardize SKILL.md metadata and refresh eval reports #43
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| name: Package skills and release | |
| on: | |
| push: | |
| branches: [main] | |
| paths: | |
| - 'scientific-skills/**' | |
| - 'awesome-med-research-skills/**' | |
| workflow_dispatch: | |
| permissions: | |
| contents: write | |
| jobs: | |
| package: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 0 | |
| - name: Check release and detect changes | |
| id: setup | |
| run: | | |
| mkdir -p dist | |
| touch /tmp/deleted_skills.txt | |
| # Check if latest release exists | |
| if gh release view latest >/dev/null 2>&1; then | |
| echo "Release 'latest' exists" | |
| # Check for last-packaged tag | |
| if git rev-parse refs/tags/last-packaged >/dev/null 2>&1; then | |
| last_sha=$(git rev-parse refs/tags/last-packaged) | |
| echo "Found last-packaged tag at: $last_sha" | |
| echo "mode=incremental" >> "$GITHUB_OUTPUT" | |
| git diff --name-only "$last_sha" HEAD \ | |
| | grep -E "^(scientific-skills|awesome-med-research-skills)/" \ | |
| | while IFS= read -r file; do echo "$(echo "$file" | cut -d'/' -f1-3)"; done \ | |
| | sort -u > /tmp/changed_skills.txt || true | |
| echo "Changed skill directories:" | |
| cat /tmp/changed_skills.txt | |
| else | |
| echo "No last-packaged tag — full repackage" | |
| echo "mode=all" >> "$GITHUB_OUTPUT" | |
| fi | |
| else | |
| echo "No latest release — full repackage" | |
| echo "mode=all" >> "$GITHUB_OUTPUT" | |
| fi | |
| env: | |
| GH_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| - name: Debug mode | |
| run: echo "Mode is '${{ steps.setup.outputs.mode }}'" | |
| - name: Package all skills (full) | |
| if: steps.setup.outputs.mode == 'all' | |
| run: | | |
| for root in "scientific-skills" "awesome-med-research-skills"; do | |
| for category in "Academic Writing" "Data Analysis" "Evidence Insight" "Protocol Design" "Other"; do | |
| [ -d "$root/$category" ] || continue | |
| find "$root/$category" -mindepth 1 -maxdepth 1 -type d | while IFS= read -r dir; do | |
| name=$(basename "$dir") | |
| (cd "$(dirname "$dir")" && zip -r "$GITHUB_WORKSPACE/dist/${name}.zip" "$name" \ | |
| --exclude "*/node_modules/*" \ | |
| --exclude "*/.venv/*" \ | |
| --exclude "*/venv/*" \ | |
| --exclude "*/__pycache__/*" \ | |
| --exclude "*.pyc" \ | |
| --exclude "*result*.json") | |
| done | |
| done | |
| done | |
| echo "Total: $(ls dist/*.zip | wc -l) zips" | |
| - name: Package changed skills only (incremental) | |
| if: steps.setup.outputs.mode == 'incremental' | |
| run: | | |
| while IFS= read -r skill_dir; do | |
| [ -z "$skill_dir" ] && continue | |
| name=$(basename "$skill_dir") | |
| # Search by skill name across ALL categories, not just the old path | |
| actual_dir=$(find scientific-skills awesome-med-research-skills -mindepth 2 -maxdepth 2 -type d -name "$name" 2>/dev/null | head -1) | |
| if [ -n "$actual_dir" ]; then | |
| echo "Zipping: $name (at $actual_dir)" | |
| (cd "$(dirname "$actual_dir")" && zip -r "$GITHUB_WORKSPACE/dist/${name}.zip" "$name" \ | |
| --exclude "*/node_modules/*" \ | |
| --exclude "*/.venv/*" \ | |
| --exclude "*/venv/*" \ | |
| --exclude "*/__pycache__/*" \ | |
| --exclude "*.pyc" \ | |
| --exclude "*result*.json") | |
| else | |
| echo "Deleted: $name" | |
| echo "$name" >> /tmp/deleted_skills.txt | |
| fi | |
| done < /tmp/changed_skills.txt | |
| echo "Updated: $(ls dist/*.zip 2>/dev/null | wc -l) zip(s), Deleted: $(wc -l < /tmp/deleted_skills.txt)" | |
| - name: Ensure release exists | |
| if: steps.setup.outputs.mode == 'all' | |
| run: | | |
| if ! gh release view latest >/dev/null 2>&1; then | |
| gh release create latest \ | |
| --title "Skill Packages (auto-updated)" \ | |
| --notes "Auto-generated on every push to main." | |
| else | |
| echo "Release already exists, skipping creation" | |
| fi | |
| env: | |
| GH_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| - name: Upload zips in batches | |
| id: upload | |
| run: | | |
| if ! ls dist/*.zip 2>/dev/null | grep -q .; then | |
| echo "No zips to upload" | |
| echo "uploaded=false" >> "$GITHUB_OUTPUT" | |
| exit 0 | |
| fi | |
| upload_with_retry() { | |
| local max_attempts=3 | |
| for attempt in $(seq 1 $max_attempts); do | |
| if gh release upload latest "$@" --clobber; then | |
| return 0 | |
| fi | |
| echo "Attempt $attempt failed, retrying in 30s..." | |
| sleep 30 | |
| done | |
| echo "Failed after $max_attempts attempts" | |
| return 1 | |
| } | |
| files=(dist/*.zip) | |
| total=${#files[@]} | |
| batch_size=20 | |
| echo "Uploading $total files in batches of $batch_size..." | |
| for ((i=0; i<total; i+=batch_size)); do | |
| batch=("${files[@]:i:batch_size}") | |
| upload_with_retry "${batch[@]}" | |
| echo "Progress: $((i + ${#batch[@]})) / $total" | |
| [ $((i + batch_size)) -lt $total ] && sleep 15 | |
| done | |
| echo "Uploaded $total zip(s)" | |
| echo "uploaded=true" >> "$GITHUB_OUTPUT" | |
| env: | |
| GH_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| - name: Remove deleted skills from release (incremental) | |
| if: steps.setup.outputs.mode == 'incremental' | |
| run: | | |
| if [ -s /tmp/deleted_skills.txt ]; then | |
| while IFS= read -r name; do | |
| echo "Removing: ${name}.zip" | |
| gh release delete-asset latest "${name}.zip" --yes 2>/dev/null || true | |
| done < /tmp/deleted_skills.txt | |
| else | |
| echo "No skills deleted" | |
| fi | |
| env: | |
| GH_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| - name: Mark last packaged commit | |
| run: | | |
| sha=$(git rev-parse HEAD) | |
| if gh api "repos/$GITHUB_REPOSITORY/git/refs/tags/last-packaged" >/dev/null 2>&1; then | |
| gh api "repos/$GITHUB_REPOSITORY/git/refs/tags/last-packaged" -X PATCH -f sha="$sha" -F force=true | |
| else | |
| gh api "repos/$GITHUB_REPOSITORY/git/refs" -X POST -f ref="refs/tags/last-packaged" -f sha="$sha" | |
| fi | |
| echo "last-packaged tag updated to $sha" | |
| env: | |
| GH_TOKEN: ${{ secrets.GITHUB_TOKEN }} |