feat(signing): add exact-localSha dependency-manifest compatibility proof (S3b Part 2a) - #502
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…roof (S3b Part 2a) Extends the diagnostic-only PushEvidence dimension introduced in Part 1 (#501) with a second, independent signal: dependencyState. Compares each pushed commit's dependency manifests (package.json, pnpm-lock.yaml, pnpm-workspace.yaml, packages/*/package.json, patches/**) against the locally reconciled fingerprint, entirely via git objects (ls-tree/show) — no worktree materialization, reusing the exact filesystem-fingerprint algorithm already trusted by scripts/dependency-state.mjs. Mirrors Part 1's isolation guarantees precisely: never throws into resolvePushEvidence's canonical try/catch, DELETED updates skip the diagnostic entirely, and aggregation reuses the same generalized aggregateDiagnosticState precedence (DIVERGED > UNKNOWN > MATCHES, NOT_APPLICABLE only when every update is inapplicable). Also fixes a regression this change would otherwise introduce: importing dependency-state.mjs into signing-core.mjs pulls its top-level projectRoot computation into every Vitest test that imports signing-core transitively, and import.meta.url is not a file: URL under Vitest's transform — a pre-existing, previously-dormant constraint (why dependency-state's own tests run under node:test, not Vitest). Guarded with a process.cwd() fallback consistent with signing-core's own existing convention.
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Reviewer's GuideIntroduces an independently computed, diagnostic-only dependencyState dimension by fingerprinting pushed commits’ dependency manifests directly from git objects, integrates its four-state results into signing and pre-push evidence without affecting canonical validity, and adds comprehensive tests, typings, and a Vitest compatibility fallback. Flow diagram for diagnostic state aggregationflowchart LR
Updates[Push evidence updates] --> States[dependencyState values]
States --> Diverged{Any DIVERGED?}
Diverged -->|Yes| DIVERGED[DIVERGED]
Diverged -->|No| Unknown{Any UNKNOWN?}
Unknown -->|Yes| UNKNOWN[UNKNOWN]
Unknown -->|No| Relevant{Any applicable update?}
Relevant -->|No| NA[NOT_APPLICABLE]
Relevant -->|Yes| MATCHES[MATCHES]
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This PR adds a well-architected diagnostic-only dependencyState dimension to track dependency manifest compatibility between pushed commits and locally reconciled baselines. The implementation correctly mirrors the existing workingTreeState dimension with proper isolation from canonical evidence validity.
Key Strengths:
- Comprehensive test coverage with 71 total tests (12 new unit tests + 47 updated Vitest tests)
- Proper error handling with fail-safe design that returns
UNKNOWNrather than throwing - Type-safe implementation with complete TypeScript definitions
- Effective DRY refactoring via
aggregateDiagnosticStateshared function - Git-object-only comparison verified byte-identical to filesystem-based fingerprinting
Architecture:
- Uses the same 4-state model (
MATCHES | DIVERGED | NOT_APPLICABLE | UNKNOWN) asworkingTreeState - Diagnostic signals remain informational only and never gate operations
- Proper dependency injection for testability throughout
The changes are production-ready with no blocking defects identified.
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Hey - I've found 1 issue
Prompt for AI Agents
Please address the comments from this code review:
## Individual Comments
### Comment 1
<location path="scripts/dependency-state.mjs" line_range="97-104" />
<code_context>
+}
+
+function defaultReadFileAtRef(sha, relativePath, cwd) {
+ const result = spawnSync('git', ['show', `${sha}:${relativePath}`], {
+ cwd,
+ encoding: 'utf8',
+ timeout: 5000,
+ maxBuffer: 16 * 1024 * 1024,
+ });
+ if (result.error || result.status !== 0) return null;
+ return result.stdout;
+}
+
</code_context>
<issue_to_address>
**issue (bug_risk):** `git show` decodes manifest contents as UTF-8 before hashing, while `calculateDependencyFingerprint` hashes raw filesystem bytes. A dependency manifest or patch containing invalid UTF-8 bytes is therefore transformed to replacement characters and receives a different fingerprint even when the committed and local bytes are identical, producing `DIVERGED` instead of `MATCHES`.
**Triggers:** When a tracked dependency manifest or patch contains bytes that are not valid UTF-8.
**Suggested fix:** Read git-show output as a `Buffer` (or use a binary-safe Git invocation) and hash the same raw bytes as the filesystem path.
</issue_to_address>Sourcery assessment
Approval pending. 1 finding to address first.
Blocking findings: scripts/dependency-state.mjs:104
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Included review availability: 0 reviews are currently available. Your included PR review attempts over the past 7 days set your current allowance at 1 review per hour. 📝 WalkthroughWalkthroughThe PR adds Git-ref dependency fingerprinting and diagnostic states. It propagates dependency state through push evidence and manual-range results, reports divergence during pre-push checks, expands unit coverage, and updates README test counts. ChangesDependency state diagnostics
Test-count documentation
Estimated code review effort: 3 (Moderate) | ~25 minutes Merge Risk: 🟡 Moderate · up to The changed signing test file still contains a duplicate declaration that prevents it from parsing, so the PR is not merge-ready until the test file is corrected and the checks pass again. Sequence Diagram(s)sequenceDiagram
participant resolvePushEvidence
participant computeDependencyState
participant calculateDependencyFingerprintFromRef
participant Git
resolvePushEvidence->>computeDependencyState: compute state for outgoing ref
computeDependencyState->>calculateDependencyFingerprintFromRef: calculate ref fingerprint
calculateDependencyFingerprintFromRef->>Git: list and read dependency manifests
Git-->>calculateDependencyFingerprintFromRef: manifest contents
calculateDependencyFingerprintFromRef-->>computeDependencyState: fingerprint or null
computeDependencyState-->>resolvePushEvidence: MATCHES, DIVERGED, or UNKNOWN
🚥 Pre-merge checks | ✅ 4 | ❌ 1❌ Failed checks (1 warning)
✅ Passed checks (4 passed)
Full details: Docstring CoverageExplanation Docstring coverage is 52.63% which is insufficient. The required threshold is 80.00%. Docstring coverage is scoped to functions touched by this diff. Analyzed 19 functions across 10 files. (1 skipped: 1 unsupported.) ✨ Finishing Touches 💡 1📝 Generate docstrings 💡
🧪 Generate unit tests (beta)
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Inline comments:
In `@scripts/dependency-state.mjs`:
- Around line 96-104: The defaultReadFileAtRef path must preserve raw Git blob
bytes so its input matches calculateDependencyFingerprint’s readFileSync data.
Remove UTF-8 decoding from defaultReadFileAtRef, update
DependencyFingerprintFromRefDependencies.readFileAtRef to accept Uint8Array
data, and add a regression test covering an included file with invalid UTF-8
bytes that verifies consistent fingerprinting.
In `@scripts/signing/signing-core.mjs`:
- Around line 372-373: Update the matchesDependencyState resolver used by the
signing flow to catch exceptions from an injected dependencyStateForRef and
return UNKNOWN instead of propagating the error to the outer INVALID path. Add
coverage with a throwing dependencyStateForRef and assert the resulting
evidenceState is RESOLVED.
In `@tests/unit/signing.test.ts`:
- Around line 525-526: Remove the duplicate shared declaration in the signing
test scope, retaining exactly one const shared definition so the file parses and
the test suite can run.
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README.mdscripts/ci-prepush-lowend.mjsscripts/ci-prepush-range-resolver.d.mtsscripts/ci-prepush-range-resolver.mjsscripts/dependency-state.d.mtsscripts/dependency-state.mjsscripts/signing/signing-core.d.mtsscripts/signing/signing-core.mjstests/unit/signing.test.tstests/unit/tooling/ciPrepushRangeResolver.test.tstests/unit/tooling/dependency-state.test.mjs
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… isolation Consolidated remediation for the #502 review epoch (Sourcery, CodeRabbit, chatgpt-codex-connector). Root cluster A -- fingerprint representation: - defaultReadFileAtRef decoded git-show output as UTF-8 before hashing, while calculateDependencyFingerprint hashes raw filesystem bytes. A manifest with invalid UTF-8 bytes hashed differently on the two paths even when identical, reporting DIVERGED instead of MATCHES. Fixed by reading git-show output as a raw Buffer (spawnSync's default) instead of decoding it, so both paths hash the same bytes. - Separately, a core.autocrlf=true checkout hashes CRLF working-tree bytes while the git blob is LF-normalized, producing a false DIVERGED for otherwise-identical manifests. Fixed with a binary-safe CRLF->LF normalization (latin1 round-trip, lossless for all 256 byte values) applied uniformly to both fingerprint paths inside the shared hashManifests -- one canonical representation, not two competing authorities. Scoped to this repo's always-text dependency manifests (package.json/pnpm-lock.yaml/pnpm-workspace.yaml/patches); no .gitattributes change. - Both regressions are proven with deterministic byte-level tests: invalid-UTF8-byte fingerprint identity, and CRLF-vs-LF fingerprint identity. Root cluster B -- diagnostic isolation: - An injected worktreeMatchesCommit or dependencyStateForRef that throws propagated through resolvePushEvidence's canonical try/catch, turning a diagnostic-only failure into evidenceState: INVALID -- otherwise- valid #494/#498 evidence would be rejected outright. Fixed with a safeDiagnostic wrapper at both call sites (TAG and NEW_BRANCH/UPDATED) so a throw maps to the dimension's own UNKNOWN state, symmetrically for both diagnostic dimensions. Regression tests added for each. False positive: CodeRabbit's "duplicate const shared declaration" claim (tests/unit/signing.test.ts) does not match current HEAD -- there is exactly one `shared` declaration per test scope; the file already typechecks and lints clean. No change made; will reply with this evidence and resolve the thread.
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…listing Follow-up finding on the #502 review epoch (chatgpt-codex-connector), same root area as the earlier byte-identity fix. defaultListTreeFiles called `git ls-tree -r --name-only <sha>` without `--full-tree` or `-z`. Two effects: git's default core.quotepath=true C-quotes any path containing bytes above 0x80 (or other unusual bytes), so a non-ASCII dependency filename (e.g. a patch) would come back double-quoted and octal-escaped instead of matching the plain-string filters (rootFiles.has(path), path.startsWith('patches/')) -- silently excluding it from the git-object fingerprint even though the filesystem fingerprint includes it via readdirSync's real decoded name, producing a false DIVERGED. Separately, `--full-tree` makes the listing robust to a cwd/root that isn't exactly the repository top level. Fixed by adding `--full-tree` and `-z` (NUL-delimited, unquoted) and parsing on `\0` instead of `\n`. Proven with a regression test using a real git repo and a non-ASCII patch filename (not injected fakes, since this specifically exercises the real spawnSync invocation's flags).
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Summary
This PR successfully adds dependency-manifest compatibility checks to push evidence as a diagnostic dimension. The implementation is thorough, well-tested, and follows sound engineering practices.
Key strengths:
- Defensive design:
computeDependencyStatenever throws, preventing diagnostic failures from corrupting canonical evidence validity - Clear separation of concerns: Diagnostic signals (
dependencyState,workingTreeState) are independent from evidence validity (evidenceState,pathEvidenceState) - Code reuse: Shared
hashManifestsandaggregateDiagnosticStatefunctions eliminate duplication and prevent drift - Comprehensive testing: 47 Vitest tests + 12 node:test tests covering matching, divergence, error handling, and edge cases
- Correctness proof: Dedicated unit test verifies
calculateDependencyFingerprintFromRefproduces byte-identical results to filesystem-basedcalculateDependencyFingerprint
Implementation quality:
- Git operations use appropriate timeouts and fail-closed semantics (return
nullon errors, not empty arrays) - CRLF/LF normalization ensures cross-platform fingerprint consistency
- The Vitest compatibility fix (
process.cwd()fallback) is narrowly scoped and well-justified - Documentation is thorough with inline comments explaining every design decision
No blocking issues found. The code is ready for merge.
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…ization Consolidated remediation for the #503 review epoch. Reconstructs the isolated-worktree dependency environment via a real `pnpm install --frozen-lockfile --offline` instead of symlinking the live checkout's node_modules. Root cluster A -- exact-tree dependency-resolution soundness: The original design symlinked the real checkout's node_modules into the isolated worktree, reasoning a full reinstall was the unbounded cost this program had repeatedly avoided. Review, and the empirical investigation it prompted, found this unsound: pnpm workspace-package symlinks (node_modules/@domain/<pkg>) are relative, so a whole-directory symlink transitively resolves them back into the live, possibly- uncommitted packages/* -- confirmed directly (readlink -f resolved into the live checkout, not the isolated tree). A second, deeper leak was found nested at node_modules/.pnpm/node_modules/@domain/desktop-contracts, proving a hand-patched subset of the link graph could never be trusted exhaustive; package-local packages/*/node_modules directories would also simply be absent from a fresh worktree under that approach. Fixed by running a real, frozen-lockfile, offline pnpm install from inside the isolated worktree -- pnpm's own algorithm, not a reconstruction, so it is structurally correct for every link class (top-level, nested .pnpm, package-local, transitive), not just the ones this round happened to find. --offline never touches the network; a package missing from the local store fails the install, mapped to UNKNOWN, never a silently-wrong PASS. Verified end-to-end against this actual repository (real commit, real isolated worktree, real install, real tsgo): PASS, with the install completing in ~1m22s-2m20s on this hardware using the warm local store -- fully acceptable given Part 2b is opt-in. The now-unnecessary dependencyState precondition (it only ever guarded the symlink design's soundness) is removed rather than kept as inert logic; #502's dependencyState remains the sole authority for its own distinct question, unchanged. Root cluster B -- bounded process/result semantics: - resolveRef used a raw, timeout-less spawnSync, conflicting with the #500 bounded-subprocess authority, and the real CLI path crashed outright (resolveRef(ref) called without its dependencies argument, which the function then dereferenced unconditionally). Fixed by reusing signing-core's already-bounded (5s timeout), output-capturing runGit -- a distinct, pre-existing (#494) wrapper for exactly this job, since runBounded's own contract is inherit-stdio-only and structurally cannot capture stdout. main() now threads a real dependencies parameter through to resolveRef and the verification path, closing the exact gap that let the crash ship uncaught by helper-only tests. - Split the single bounded-result check into two correctly-scoped predicates: boundedCommandFailed (worktree/install lifecycle -- any non-zero or unreadable exit fails the step outright) and tsgoResultUnknown (only the tsgo result -- a genuine numeric non-zero status is a real FAIL; error/timeout/interrupt/signal/non-numeric- status mean UNKNOWN, so a signal, including an external OOM kill, can never read as a false FAIL). The prior single conflated helper broke lifecycle-failure detection for numeric non-zero exits. - verify-exact-tree.d.mts now reuses shared.d.mts's real BoundedResult type instead of an inaccurate GitResult-shaped declaration. - repoRoot is canonicalized to an absolute path before any git/install call, so a relative caller-supplied root can't produce an ambiguous cwd. - Worktree cleanup now unconditionally sweeps the mkdtemp-created directory after a successful git worktree remove, not only on failure -- git deregisters and clears the worktree's own content but leaves the pre-existing (now-empty) directory in place, which was accumulating empty leftovers under os.tmpdir() across runs. Root cluster C -- routine regression admission: .mjs node:test tooling suites (dependency-state.test.mjs, verify-exact-tree.test.mjs) fall outside Vitest's .ts/.tsx-only include glob and were never run in CI at all. Added a `test:node` script and a dedicated CI step in the quality matrix job -- the one authoritative place these run routinely, not ad-hoc local-only invocation. This retroactively covers Part 2a's dependency-state.test.mjs too, with zero touch to that file. Tests: three deliberate tiers. Fast DI-based unit coverage (bounded- result semantics, fail-closed cleanup including the leftover-directory fix, aggregation, ref resolution, and the real main() CLI entry point with realistic injected dependencies -- specifically because the resolveRef bug was invisible to helper-only tests). A real git worktree + real, zero-external-dependency pnpm workspace fixture (root -> demo-pkg -> inner-pkg) proving root, package-local, and transitive workspace-link resolution lands inside the isolated tree via direct file-content comparison against a deliberately live-mutated checkout -- the load-bearing regression proof, strong by construction (a leak would read the live, wrong value). A manual, one-time, real-repository smoke proof against this actual repo and a real commit, documented as evidence rather than run routinely (the real install alone measures over a minute on this hardware). False-positive note: CodeRabbit's "duplicate `shared` declaration" claim on the earlier #502 epoch did not match its exact-HEAD code (verified via grep + a clean typecheck/test run) and was resolved with that evidence at the time; unrelated to this remediation.
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Three further trust-boundary gaps in the isolated exact-tree verification path, found and validated empirically in this review epoch (HEAD 7a173fd): - Compiler provenance: an untrusted ref could point its tsgo-providing dependency at a workspace package with its own "tsgo" bin. The legitimate, scripts-disabled frozen install still creates that bin via normal workspace linking (not a lifecycle script), and the previous code trusted and executed whatever node_modules/.bin/tsgo the isolated worktree's own install produced. verifyExactTreeTypecheck now only invokes tsgo once #502's computeDependencyState proves this SHA's manifests are byte-exact to the trusted repoRoot's currently-installed ones (reusing that existing authority, not a second fingerprint system) -- and then resolves the compiler binary itself from the trusted repoRoot, never the isolated worktree, while cwd/--project still point exclusively at the isolated tree being analyzed. Any non-MATCHES state refuses before creating a worktree at all. - pnpm output-path containment: an untrusted ref's .npmrc can redirect modules-dir/virtual-store-dir/lockfile-dir/store-dir outside the isolated worktree (reproduced: modules-dir=../ESCAPE). installDependencies now pins all four via explicit CLI flags (highest precedence over any project .npmrc). store-dir is resolved from a fresh, empty, neutral temp directory rather than any project path -- discovered along the way that `pnpm store path` itself loads and executes .pnpmfile.cjs (no --ignore-pnpmfile support), so no project directory, trusted or not, is safe as its cwd either. - Interruption: runBounded already reports interrupted:true on SIGINT, but the previous code collapsed that to UNKNOWN like any other failure, so a multi-ref run could start another several-minute verification right after the user asked it to stop. Worktree creation, install, and tsgo now each surface interruption distinctly (a new ExactTreeInterrupted control-flow signal, never swallowed by the outer fail-closed catch); the multi-ref loop and the CLI both stop immediately and exit 130 instead of continuing or printing a normal PASS/FAIL/UNKNOWN result. Cleanup still always runs via the existing finally blocks. tests/unit/tooling/verify-exact-tree.test.mjs: adversarial regressions for all three -- a real workspace package supplying a malicious tsgo bin, never executed or yielding PASS; real escaping-.npmrc fixtures for both modules-dir and virtual-store-dir, proving no external directory is created; DI-level proofs that a compiler invocation always resolves from the trusted repoRoot; and interruption propagation through worktree creation, install, tsgo, the multi-ref loop, and main()'s exit code. Real end-to-end smoke test against this repo's own HEAD (isolated worktree, hook-free, dependencyState-gated trusted tsgo, pinned pnpm output paths) still PASSes under the fully remediated path; cleanup verified.
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User description
Summary
Part 2a of the S3b reconstruction slice (follows #501, "Part 1 — divergence detection"). Adds a second, independent diagnostic-only
PushEvidencedimension:dependencyState, answering "do the pushed commit's dependency manifests (package.json / pnpm-lock.yaml / pnpm-workspace.yaml / packages/*/package.json / patches/**) match what's reconciled locally?" — entirely via git objects (git ls-tree/git show), with no worktree materialization.This is the cheap, worktree-free half of the plan's Part 2 split (see
/home/pc/.claude/plans/world-script-studio-atomic-harbor.md§E, point 2: "dependency compatibility vs. TypeScript... should be separate sub-slices, not bundled" — TypeScript's isolated-worktree exact-localShaverification is Part 2b, tracked separately and not started here).Design (mirrors Part 1's reviewed, corrected semantics exactly)
workingTreeState:MATCHES | DIVERGED | NOT_APPLICABLE | UNKNOWN.MATCHES— comparison performed, no divergence found. Never "verified"/"validated" — it's the same tracked-content-only scope boundary that applies toworkingTreeState.DIVERGED— comparison performed, found divergence.NOT_APPLICABLE— no meaningful comparison exists (deletion; manual/no-evidence-file invocation).UNKNOWN— comparison was applicable but couldn't be established (no local baseline reconciled yet; a git-object read failed; an injected dependency threw).computeDependencyStatenever throws — it cannot corruptresolvePushEvidence's canonicalevidenceState/pathEvidenceState, exactly likecomputeWorkingTreeState. Verified with a dedicated regression test (injected-throw →UNKNOWN, not a propagated exception).aggregateWorkingTreeState→aggregateDiagnosticState(DRY — the precedence logic,DIVERGED > UNKNOWN > MATCHES,NOT_APPLICABLEonly when every relevant update is inapplicable, can't drift between the two dimensions because they now share one implementation).MATCHESis not, and never will be, used as a skip gate for Part 2b's exact TypeScript verification — same standing prohibition as Part 1, for the same reason (a git-object-only manifest comparison can't see e.g. an uncommittednode_modules/lockfile state fully).calculateDependencyFingerprintFromRef(sha, ...)(new, git-object-only) is proven byte-identical to the existing, already-trusted filesystem-basedcalculateDependencyFingerprint(root)for equivalent path/content, via a dedicated unit test — this is what makes comparing "pushed commit's manifests" against "the locally reconciled fingerprint" a sound comparison at all.Files changed (11)
scripts/dependency-state.mjs— new git-object-only primitives (dependencyFilesFromRef,calculateDependencyFingerprintFromRef,computeDependencyState), refactoredhashManifestsshared by both fingerprint paths, and aprocess.cwd()fallback for the module's top-levelprojectRoot(see "Incidental fix" below).scripts/dependency-state.d.mts— new file (didn't exist before); full type coverage for old and new exports.scripts/signing/signing-core.mjs/.d.mts—resolvePushEvidencegainsdependencyStateper-update and aggregate, via a newdependencyStateForRefDI hook (default:computeDependencyState(sha, cwd));aggregateWorkingTreeStategeneralized toaggregateDiagnosticState.scripts/ci-prepush-range-resolver.mjs/.d.mts—dependencyStatepropagated throughManualChangeEvidencein parallel withworkingTreeState(manual mode →NOT_APPLICABLE; evidence-file mode → passthrough).scripts/ci-prepush-lowend.mjs— new non-blocking report line, same pattern as the existingworkingTreeStateline, gated onDIVERGED/UNKNOWNonly.tests/unit/tooling/dependency-state.test.mjs(node:test, 12 tests),tests/unit/signing.test.ts+tests/unit/tooling/ciPrepushRangeResolver.test.ts(Vitest, 47 tests) — full coverage of the new dimension, mirroring every test Part 1 required forworkingTreeState.README.md— test-count metric resync (pnpm run sync:readme).Incidental fix (not a new feature — a regression this change would otherwise cause)
dependency-state.mjscomputesprojectRootat module-eval time fromimport.meta.url. Under Vitest's transform,import.meta.urlis not always afile:URL, andfileURLToPaththrows — this is a pre-existing, documented limitation (it's whydependency-state.mjs's own tests run undernode:test, not Vitest). It was previously dormant because nothing Vitest-tested ever imported this module. This PR'ssigning-core.mjs → dependency-state.mjsimport changes that, so aprocess.cwd()fallback (consistent withsigning-core.mjs's own existing convention — every one of its exports already defaultscwd = process.cwd()) was added to keep the real CLI/hook behavior byte-identical while fixing the Vitest-only crash.Explicitly out of scope
localSha-worktree TypeScript verification) — separate PR, per the plan's own split.scripts/hooks/shared.mjshas the identical dormantimport.meta.urlpattern but is never imported by a Vitest-run file today, so it isn't touched here (no live regression to fix, and it's outside this slice's file list).Test plan
pnpm exec vitest run tests/unit/signing.test.ts tests/unit/tooling/ciPrepushRangeResolver.test.ts— 47/47 passingnode --test tests/unit/tooling/dependency-state.test.mjs— 12/12 passingpnpm run typecheck(4-checker, CI-exact) — cleanpnpm run lint— clean (pre-existing unrelated info-level findings instrykerWorkflowPolicy.test.tsonly)pnpm run ci:prepush— full local admission PASSpnpm run signing:doctor— signing config verified before pushSummary by Sourcery
Add isolated, worktree-free dependency-manifest compatibility diagnostics to push evidence.
New Features:
Bug Fixes:
Enhancements:
Tests:
Chores:
CodeAnt-AI Description
Add dependency-manifest compatibility checks to push evidence
What Changed
MATCHES,DIVERGED,UNKNOWN, andNOT_APPLICABLE, while remaining informational and separate from evidence validity.Impact
✅ Detects unreconciled dependency changes before push✅ Keeps valid push evidence usable when diagnostics are unavailable✅ Clearer dependency compatibility warnings💡 Usage Guide
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Summary by CodeRabbit
New Features
Documentation
Tests