[CEL-1327] Stop tracking derived RepoSkein graph

[mong-x]

Linear

CEL-1327

Change

• Stop tracking derived .reposkein/nodes.jsonl and .reposkein/edges.jsonl.
• Keep both files locally generated and ignored by existing .reposkein/.gitignore.
• Remove obsolete graph merge declarations from root .gitattributes.
• Preserve authored summary shards and RepoSkein config unchanged.

Upstream fix and migration: reposkein/reposkein#35. Current local indexer: 0.7.0.

Evidence

• Pre-fix invariant on origin/main: two derived graph files tracked.
• Post-fix invariant on HEAD: zero derived graph files tracked.
• Both derived files resolve through .reposkein/.gitignore.
• Real pre-commit hook completed and staged no graph output.
• Fresh index succeeded; indexed-at marker equals exact head.
• git diff --check origin/main..HEAD passed.
• Embedded semantic summaries before migration: zero.

Test plan

• Verify git ls-files .reposkein/nodes.jsonl .reposkein/edges.jsonl is empty.
• Verify git check-ignore -v .reposkein/nodes.jsonl names .reposkein/.gitignore.
• Run reposkein-mcp index .; graph must rebuild locally.
• Commit a docs-only change; graph files must remain untracked and unstaged.

No package publish, deployment, or product runtime change.

Exact head: e08f721

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Summary by cubic

Stops tracking the derived RepoSkein graph files (.reposkein/nodes.jsonl and .reposkein/edges.jsonl) so stale incremental re-indexing from the pre-commit hook can no longer silently delete live graph nodes after a merge. The files remain locally generated and covered by the existing .reposkein/.gitignore; the obsolete merge=union declarations in .gitattributes are removed since nothing tracks those paths anymore.

^{Written for commit e08f721. Summary will update on new commits.}

[coderabbitai]

No actionable comments were generated in the recent review. 🎉

ℹ️ Recent review info

⚙️ Run configuration

Configuration used: Organization UI

Review profile: CHILL

Plan: Pro Plus

Run ID: f7f163dc-4174-4961-9dd8-724e4a0f2bd4

📥 Commits

Reviewing files that changed from the base of the PR and between 168453d and e08f721.

📒 Files selected for processing (3)

• .gitattributes
• .reposkein/edges.jsonl
• .reposkein/nodes.jsonl

💤 Files with no reviewable changes (3)

• .gitattributes
• .reposkein/edges.jsonl
• .reposkein/nodes.jsonl

Included review availability: Your plan provides up to 1 included review per hour; 0 remain after this review.

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📝 Walkthrough

Summary by CodeRabbit

• Chores
  • Removed internal repository relationship and structure index files.
  • Updated repository configuration so these files no longer use a custom merge driver.

Walkthrough

The change removes custom merge-driver attributes from .gitattributes and deletes the .reposkein JSONL repository index files.

Changes

Repository index cleanup

Layer / File(s)	Summary
Remove index merge configuration and generated indexes .gitattributes, .reposkein/nodes.jsonl, .reposkein/edges.jsonl	The custom reposkein-jsonl merge attributes and the repository index files were removed.

Estimated code review effort: 1 (Trivial) | ~2 minutes

Merge Risk: ⚪ Minimal · up to e08f7

This change stops tracking locally generated RepoSkein graph files while preserving local regeneration and ignore rules; no actionable merge-blocking risk remains after normal checks and review.

Suggested labels: fix

Poem

A rabbit tidies JSONL trails
The merge flag hops beyond the rails
Nodes and edges leave the burrow bright
No stale index files remain in sight
The repository rests light tonight

🚥 Pre-merge checks | ✅ 5

✅ Passed checks (5 passed)

Check name	Status	Explanation
Description check	✅ Passed	The description clearly explains that the derived RepoSkein graph files will no longer be tracked, that they remain locally generated and ignored, and that obsolete merge declarations are removed. It …
Title check	✅ Passed	The title, "[CEL-1327] Stop tracking derived RepoSkein graph," clearly and concisely summarizes the primary change in the pull request.
Docstring Coverage	✅ Passed	No functions found in the changed files to evaluate docstring coverage. Skipping docstring coverage check. Docstring coverage is scoped to functions touched by this diff. Analyzed 0 functions across 0…
Linked Issues check	✅ Passed	Check skipped because no linked issues were found for this pull request.
Out of Scope Changes check	✅ Passed	Check skipped because no linked issues were found for this pull request.

Full details: Description check

Explanation

The description clearly explains that the derived RepoSkein graph files will no longer be tracked, that they remain locally generated and ignored, and that obsolete merge declarations are removed. It matches the changeset and objectives.

Full details: Docstring Coverage

Explanation

No functions found in the changed files to evaluate docstring coverage. Skipping docstring coverage check. Docstring coverage is scoped to functions touched by this diff. Analyzed 0 functions across 0 files.

✨ Finishing Touches

🧪 Generate unit tests (beta)

• Create PR with unit tests
• Commit unit tests in branch mjnong/cel-1327-stop-tracking-reposkein

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[cubic-dev-ai]

No issues found across 3 files

Confidence score: 5/5

• Automated review surfaced no issues in the provided summaries.
• No files require special attention.

<sub>Auto-approved: Stops tracking derived RepoSkein graph files and removes now-dead merge declarations, fixing the pre-commit hook that deleted graph nodes. Reduction in exposure; derived files regenerable and still locally ignored.

Re-trigger cubic</sub>

[mong-x]

Independent spec review (exact SHA e08f721): P0-P3 findings: none. CEL-1327 migration matches reposkein/reposkein#35: derived nodes/edges are untracked and ignored, local index evidence targets this SHA, embedded semantic-summary count was zero, committed RepoSkein config/summary shards remain unchanged, obsolete root graph merge attributes are removed, and diff contains no product/runtime scope creep. Deletion-only diff is required untracking, not test/slop overfit. Verdict APPROVE.

[mong-x]

Independent standards review (exact SHA e08f721): P0-P3 findings: none. Diff limited to untracking .reposkein/nodes.jsonl and .reposkein/edges.jsonl, plus removing their obsolete merge attributes. git diff --check clean. Skill-perspective check: ran (programming, remove-ai-slops); no violations. Verdict APPROVE.