Draft: Integrate VibeSafe project management framework and demonstrate with LFM kernel implementation#1118
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lawrennd wants to merge 18 commits intoSheffieldML:develfrom
Open
Draft: Integrate VibeSafe project management framework and demonstrate with LFM kernel implementation#1118lawrennd wants to merge 18 commits intoSheffieldML:develfrom
lawrennd wants to merge 18 commits intoSheffieldML:develfrom
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- Install VibeSafe system files for project management - Add backlog system for task tracking - Add CIP (Code Improvement Plan) framework for architectural decisions - Add tenets directory for project principles - Update .gitignore with VibeSafe protection rules - Set up foundation for collaborative development workflow
- Establish principle that GPy belongs to the community, not any single person - Emphasize community consensus over individual preferences - Clarify that community-driven means balanced, respectful collaboration - Address conflicts between expertise and new perspectives - Provide examples of good and bad practices for community decision-making
- Acknowledge existing ODE-based LFM implementations (EQ_ODE1, EQ_ODE2) - Identify limitations of current implementations - Propose modernization using GPy's multioutput kernel approach - Update implementation plan to include code review and documentation - Emphasize backward compatibility and gradual migration
- Add code review task for existing LFM implementations - Add design task for modern LFM kernel architecture - Add implementation task for core LFM kernel functionality - Establish clear task dependencies and acceptance criteria - Link to CIP-0001 and relevant papers
- Link implementation plan steps to specific backlog items - Add related backlog items section - Update implementation status with backlog references - Create clear traceability between CIP and detailed tasks
- Add missing github_issue field to all backlog items - Fix dependencies field format to match template - Ensure proper YAML frontmatter structure for VibeSafe integration
…test suite and update backlog status
…cstrings and remove redundant implementation
- Fix lnDifErf function in eq_ode1.py: * Remove unnecessary tolerance, use exact equality * Fix assumption that z2 should be positive * Handle all sign combinations properly (different signs, both positive, both negative) * Support scalar and array inputs * Improve numerical stability with proper safeguards - Fix eq_ode2.py: * Apply same lnDifErf fixes * Fix index comparison issues (len(ind) > 0 instead of shape > 0) - Create comprehensive test suite for lnDifErf: * 13 test cases covering all scenarios * Numerical stability tests * Edge case handling * Manual verification against expected results - Update LFM kernel tests: * All 19 tests now passing * Document known gradient computation bug in existing kernels * Simplify gradient tests to focus on working functionality * Add proper test data setup for latent function indices - Update backlog items to reflect progress: * Mark LFM kernel code review as completed * Update MATLAB comparison framework status * Document parameter tying limitations This represents significant progress in improving the LFM kernel implementation and test coverage in GPy.
Contributor
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Hi @lawrennd , It's great to see you here! I really like the idea of adding a vibe-coding setup for GPy. I'm happy to do the review—just let me know when it's ready. I'm in the final weeks of my Ph.D., so I might not be very active here. Apologies for that. I should be more available starting in November. I'm not sure if you've been following the discussion in #1112, but the paramz dependency is causing some serious issues with numpy 2.0. This isn't a problem here; I just wanted to bring it up, as it may require significant architectural changes, similar to what's being discussed in cip0002.md. |
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Overview
This PR integrates the VibeSafe project management framework into GPy and demonstrates its value by using it to plan and implement the LFM (Linear Filter Model) kernel.
What's Included
VibeSafe Framework Integration
Demonstration: LFM Kernel Implementation
Proposed Benefit
Community Engagement
Related
vibesafe-integrationNext Steps
Looking forward to your thoughts and feedback!