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- Add continuous integration workflow for testing Snakemake workflows - Add container build pipeline for Docker and Singularity images - Add documentation build and deployment workflow - Add automated release workflow with container publishing - Add markdown link checking configuration - Support testing across multiple Python versions (3.8, 3.9, 3.10) - Include code quality checks with flake8, black, and isort - Add security scanning with Trivy - Support multi-architecture container builds (linux/amd64, linux/arm64)
- Replace setup.py with comprehensive pyproject.toml - Add pixi configuration with multiple environments (dev, jupyter, docs) - Update CI workflows to use pixi instead of micromamba - Add version info to ocp_tool package - Include useful pixi tasks for development workflow
Remove pyfesom2 from main dependencies to avoid conflict with pixi-dependencies section
- Replace snakemake with snakemake-minimal for better compatibility - Add bioconda channel for snakemake-minimal - Fix deprecated depends_on to depends-on syntax - Add missing workflow/README.md for documentation check
- Remove obsolete setup.py that was causing version conflicts - Update Python version constraint to >=3.8,<3.12 in pyproject.toml - This resolves pixi installation failures in CI due to Python 3.11 incompatibility
- Remove pyfesom2 from pypi-dependencies due to its Python <3.10 restriction - Remove self-referential ocp-tool installation from pypi-dependencies - Support all Python versions >=3.8 (no upper limit) - Add linux-aarch64 platform support for ARM servers - This should resolve all pixi installation issues in CI
- Re-enabled pyfesom2 dependency using modernize-packaging branch - Verified local pixi configuration validates successfully - Tested CI workflows locally using act tool - All environments (dev, docs, jupyter, full) properly configured 🤖 Generated with [Claude Code](https://claude.ai/code) Co-Authored-By: Claude <noreply@anthropic.com>
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This reverts commit 18679f0.
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superseeded by #42 |
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Add CI/CD workflows and modern packaging from PR #33
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For humans: I went through and modernized here a bit, with pixi as a packing environment, CI testing, and a snakemake workflow. I had my AI set up the PRs, and I have no idea if it got the chaining order right, so, please do not touch this for right now! This is just a "heads up, the HPC guys have some improvements coming soon"
Summary
Comprehensive modernization of ocp-tool with CI/CD pipeline, modern Python packaging, and automated Snakemake workflows. This contribution brings ocp-tool up to current Python development standards while adding powerful automation capabilities.
🚀 Major Features Added
CI/CD Pipeline Infrastructure
Modern Python Packaging
Snakemake Workflow Automation
🔧 Technical Improvements
Dependencies & Compatibility
Quality Assurance
Workflow Capabilities
📊 Impact
This modernization provides:
🧪 Testing & Validation
acttool for GitHub Actions validation📚 Documentation
Complete documentation added for:
This contribution maintains full backward compatibility while adding modern capabilities that will benefit the entire ocp-tool community.
🤖 Generated with Claude Code