chore: Move study configs to logbook artifact directories

[chrisjz]

Summary

• Move configs/studies/health_scaling/ → artifacts/logbooks/005/health_scaling/ (logbook 005)
• Move configs/studies/plasticity/ → artifacts/logbooks/008/plasticity/ (logbook 008)
• Update all active references in scripts, docs, specs, and gitignore
• Remove the now-empty configs/studies/ directory

Study configs belonged to specific experiment logbooks but were stored separately under configs/studies/. This aligns them with the established pattern where logbook experiment configs live in artifacts/logbooks/<N>/.

Test plan

• Pre-commit checks pass
• All active references to configs/studies/ updated (grep verified)
• Archived openspec change docs left as-is (historical records)
• Verify run_plasticity_test.py and run_health_scaling_study.sh work with new paths

🤖 Generated with Claude Code

Summary by CodeRabbit

• Chores
  • Configuration file paths have been reorganized and updated across documentation and scripts
  • Documentation updated to reflect new artifact locations for experimental configurations

[coderabbitai]

No actionable comments were generated in the recent review. 🎉

ℹ️ Recent review info

⚙️ Run configuration

Configuration used: defaults

Review profile: CHILL

Plan: Pro

Run ID: 3a6c487c-1012-413d-9e0e-9181365bc303

📥 Commits

Reviewing files that changed from the base of the PR and between a09879b and fcf84f8.

📒 Files selected for processing (24)

• .gitignore
• artifacts/logbooks/005/health_scaling/control_p1.yml
• artifacts/logbooks/005/health_scaling/control_p10.yml
• artifacts/logbooks/005/health_scaling/control_p2.yml
• artifacts/logbooks/005/health_scaling/control_p3.yml
• artifacts/logbooks/005/health_scaling/control_p5.yml
• artifacts/logbooks/005/health_scaling/control_p7.yml
• artifacts/logbooks/005/health_scaling/health_p1.yml
• artifacts/logbooks/005/health_scaling/health_p10.yml
• artifacts/logbooks/005/health_scaling/health_p2.yml
• artifacts/logbooks/005/health_scaling/health_p3.yml
• artifacts/logbooks/005/health_scaling/health_p5.yml
• artifacts/logbooks/005/health_scaling/health_p7.yml
• artifacts/logbooks/008/plasticity/crh_plasticity.yml
• artifacts/logbooks/008/plasticity/hybridclassical_plasticity.yml
• artifacts/logbooks/008/plasticity/hybridquantum_plasticity.yml
• artifacts/logbooks/008/plasticity/mlpppo_plasticity.yml
• artifacts/logbooks/008/plasticity/qrh_plasticity.yml
• configs/README.md
• docs/experiments/logbooks/005-health-system-predator-scaling.md
• docs/experiments/logbooks/008-quantum-brain-evaluation.md
• openspec/specs/plasticity-evaluation/spec.md
• scripts/run_health_scaling_study.sh
• scripts/run_plasticity_test.py

💤 Files with no reviewable changes (2)

• .gitignore
• configs/README.md

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📝 Walkthrough

Walkthrough

This PR relocates experiment configuration files from the configs/studies/ directory structure to artifacts/logbooks/ and updates all corresponding references across documentation, scripts, and configuration management files.

Changes

Cohort / File(s)	Summary
Configuration Management .gitignore, configs/README.md	Removed ignore negation pattern and documentation entry for studies/ directory, consolidating study configs under the broader ignore rule and removing outdated directory references.
Experiment Documentation docs/experiments/logbooks/005-health-system-predator-scaling.md, docs/experiments/logbooks/008-quantum-brain-evaluation.md	Updated config file path references from configs/studies/{health_scaling,plasticity}/... to artifacts/logbooks/{005,008}/{health_scaling,plasticity}/... in both Health-enabled and Control conditions.
Specification & Scripts openspec/specs/plasticity-evaluation/spec.md, scripts/run_health_scaling_study.sh, scripts/run_plasticity_test.py	Updated CLI invocation paths and configuration directory references to point from configs/studies/ to artifacts/logbooks/{005,008}/ locations in spec examples and script variables.

Estimated code review effort

🎯 2 (Simple) | ⏱️ ~10 minutes

Possibly related PRs

• feat: Add QSNN type brains #54: Adds and updates logbook artifacts and YAML configuration files that these path updates directly reference.
• feat: Add health system #38: Introduces health system configurations in the study directory structure that these updates migrate to the new artifacts location.

Poem

🐰 Hoppity-hop, the configs are on the move,
From studies to logbooks, we found our groove,
All paths updated with a careful paw,
References renewed without a flaw,
Artifacts directory—the warren's new home! 🎉

🚥 Pre-merge checks | ✅ 3

✅ Passed checks (3 passed)

Check name	Status	Explanation
Description Check	✅ Passed	Check skipped - CodeRabbit’s high-level summary is enabled.
Title check	✅ Passed	The PR title accurately describes the main change: moving study configuration files from configs/studies/ to logbook artifact directories, which is the core objective of the entire changeset.
Docstring Coverage	✅ Passed	No functions found in the changed files to evaluate docstring coverage. Skipping docstring coverage check.

_{✏️ Tip: You can configure your own custom pre-merge checks in the settings.}

✨ Finishing Touches

📝 Generate docstrings

• Create stacked PR
• Commit on current branch

🧪 Generate unit tests (beta)

• Create PR with unit tests
• Commit unit tests in branch chore/move-study-configs-to-artifacts

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[codecov]

Codecov Report

✅ All modified and coverable lines are covered by tests.

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