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254 commits

Author SHA1 Message Date
Gergő Magyar
21a52af1d4
fix(lbug): ship FTS per-platform and recover in-place native aborts (#3274)
* fix(lbug): pin Ladybug core so Dependabot cannot ship a skewed FTS artifact

The extension version is a separate upstream constant. Ignore daily core bumps and fail the pairing gate when the committed manifest does not name the installed core.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(lbug): make doctor and CI FTS gates resolve the packaged artifact

Doctor and the REQUIRE_FTS file gates still treated an empty ~/.lbdb as
unavailable, which would turn three CI jobs red once analyze stops
installing into that tree.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(lbug): name native-abort and tuple-missing so analyze cannot mis-advise

The CLI summary's trailing else treated every unknown skip reason as a
missing extension. New crash and platform causes must get their own
remedies, not a network-install hint.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(lbug): delete the dead read-path FTS index create

ensureFTSIndex had no production callers and swallowed read-only
CREATE_FTS_INDEX failures, which hid the only signal that a reader
tried to write.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(lbug): vendor per-platform FTS artifacts so analyze needs no host install

Keyword search depended on a CDN fetch into ~/.lbdb. Shipping the five
published tuples inside the package makes air-gapped and ignore-scripts
installs load the same artifact the publish gate checksums.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(lbug): load the packaged FTS artifact before any network install

Analyze still required a CDN fetch into ~/.lbdb even when the package
already shipped the file. FTS now path-loads the vendored tuple first
and records source labels so a later truncated home copy cannot steal
the diagnosis.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(lbug): diagnose a core/extension version skew instead of a missing runtime

A structurally valid FTS artifact whose path version disagrees with the
packaged pin must name both versions, not prescribe VC++ or OpenSSL.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(lbug): stamp an FTS phase so repair stays usable after an in-place abort

A native CREATE_FTS_INDEX abort leaves no skip reason; the next run infers
it from the dirty flag, and --repair-fts must not treat that phase as a
half-written graph.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(lbug): park an in-place FTS crash WAL without wiping the graph

An FTS abort after a successful checkpoint must reopen the live index on
macOS, Windows, and Linux. Staging never parks the live WAL; readers keep
today's large-WAL refusal.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(lbug): refuse read-only opens of an FTS-poisoned WAL

MCP and serve cannot repair a leftover in-place abort. Fail before the
native open and name --repair-fts, on macOS, Windows, and Linux.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(lbug): name a vendor-neutral Windows OpenSSL prerequisite

OQ1 is unanswered here so GitNexus does not ship OpenSSL DLLs. Windows
FTS now asks for a system OpenSSL 3 runtime instead of Git Bash PATH.

Co-authored-by: Cursor <cursoragent@cursor.com>

* test(lbug): inject the FTS vendor root and redact it on HTTP and MCP

Path-loaded artifacts no longer vary with HOME. Tests pass an injected
vendor tree and assert search warnings never leak a filesystem path.

Co-authored-by: Cursor <cursoragent@cursor.com>

* docs(lbug): document load-only as the global FTS install default

Analyze still overrides to auto. Packaged per-platform artifacts load
before any network install on macOS, Windows, and Linux.

Co-authored-by: Cursor <cursoragent@cursor.com>

* docs(lbug): format the FTS install-policy README table

Prettier does not run on Markdown in pre-commit, so the U10 table wrap
needs its own formatting commit.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(lbug): skip FTS CREATE after a persisted native abort

A recovered analyze run was retrying CREATE_FTS_INDEX from skipReason
alone. Keep that skip until --repair-fts, fail closed on unsupported
tuples, and honor the checkpoint warrant for park/repair.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(lbug): honor checkpoint flushed warrant and align FTS tests with packaged vendor

A no-op CHECKPOINT must not satisfy the FTS park warrant, and CI still asserted HOME-only FTS isolation after analyze started path-LOADing the packaged artifact.

Co-authored-by: Cursor <cursoragent@cursor.com>

* test(lbug): accept a nonempty incremental write set in the #2790 recovery check

FTS-phase recovery can incremental-add files (changed=0, added=1). That is not the #2790 empty-diff wipe skip.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(lbug): compare FTS home versions to the core pin and tighten the publish filename gate

Ladybug's ~/.lbdb/extension directory is the runtime/core version; treating it as the artifact version false-diagnosed skew. The publish guard now rejects a path-escaping filename the same way the fetch script does.

Co-authored-by: Cursor <cursoragent@cursor.com>

* test(lbug): seed FTS e2e fixtures from the packaged vendor artifact

A machine with no ~/.lbdb copy should still run the vendor-survivorship cases; the seed no longer depends on HOME or a network install.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Address PR review feedback (#3274)

Keep in-place FTS abort evidence after persist so a second CREATE abort
cannot fail-open readers, and close the CLI, loader, embed, and e2e gaps
the review called out.

Note: full npm test hit Ladybug worker-pool startup failures under memory
pressure; tsc and 180 targeted unit tests passed.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Address PR review feedback (#3274)

Run the vendored-path symlink guard on the OS matrix, put e2e HOME
fixtures on Ladybug's real extension layout, pin the embed crash-WAL
gate before the writable open, and let analyze writers park through
missing-shadow recovery.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(lbug): keep --repair-fts CI green after vendored-first FTS

Never-installed warning fixtures must not inspect a packaged vendor binary, and a failed dirty restamp must not abort an otherwise successful --repair-fts run.

Co-authored-by: Cursor <cursoragent@cursor.com>

* test(cli): give the #1169 analyze e2e the same 90s Windows budget as its sibling

The first #1169 persist-meta case was still on a 60s spawn/it budget and was killed banner-only on windows-latest after the FTS warning fixture no longer failed the shard first.

Co-authored-by: Cursor <cursoragent@cursor.com>

* test(ci): reweight Windows shards after the FTS e2e grew

Vendored-first HOME fixtures pushed fts-extension-e2e to ~6 minutes on windows-latest, so the old 146s weight packed it with skills-e2e and blew the 20-minute watchdog.

Co-authored-by: Cursor <cursoragent@cursor.com>

---------

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
2026-09-14 08:52:24 +01:00
mengkaka
79543c8f83
feat(storage): add configurable index storage and content retention tiers (#3060)
* feat(storage): add configurable index storage and content retention tiers

Rebase #3060 onto current origin/main. Keep GITNEXUS_STORAGE_PATH,
GITNEXUS_STORAGE_ROOT, and GITNEXUS_CONTENT_RETENTION, and fold in
main's FTS skip, embed-session, and help-text updates.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Address PR review feedback (#3060)

Keep legacy registry rows on the local storage fallback, resolve
symlinks before the destructive-path guard, and align hook lookup
with CLI branch slugs, branch-slot metadata, and longest-path match.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Address PR review feedback (#3060)

Only list swept upload directories after a successful removal so
callers cannot treat a permission or transient rm failure as gone.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Address PR review feedback (#3060)

Document that getStoragePath may consult registered storage while
this module still does not mutate the global registry.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(storage): close review findings for external indexes and retention

Re-inspect ownership under the analyze lock, fail-closed when the
registry file is missing, and keep skip-git hook discovery plus
retention fields on HTTP/MCP list surfaces. /api/file stays 410
unless contentRetention is full.

Co-authored-by: Cursor <cursoragent@cursor.com>

* chore(autofix): apply prettier + eslint fixes via /autofix command

* Address PR review feedback (#3060)

Treat lock-only index dirs as empty, honor HTTP --force storage policy, and prefer registered plus branch-aware slots in hooks and augment.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Address PR review feedback (#3060)

Keep hook fallbacks inside the current worktree, compare foreign-local slots canonically, and make storage fixtures survive ownership validation.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Fix macOS hook test expecting realpath'd registry paths.

resolveHookRepo returns the written registry path, not a filesystem realpath, so the assertion must match that.

* Address gitnexus-check warnings on hook install docs and slot tests.

The Cursor troubleshooting list omitted registry-query.cjs, and the writable-slot test only checked that isDirectory exists instead of that the path is a directory.

* Align the HTTP catalog source-scan with skippable resolveRepo validation.

resolveRepo lists fresh repos with validate: options.validateStorage !== false so DELETE can skip prune; the test still required a literal validate: true.

* Harden storage path sinks so CodeQL path-injection and ReDoS alerts clear.

Contain every filesystem probe inside the resolved storage slot with the inline path.relative idiom, reject filesystem-root slots, and trim slot basenames in linear time.

* Settle bridge stamps before writing so CI size/mtime matches stay stable.

LadybugDB can still flush into bridge.lbug after close+rename; persist whole-millisecond mtimes and wait for consecutive stats to agree so a freshly written pair matches.

* Type the settled bridge stat as fs.Stats so tsc does not see bigint.

Awaited<ReturnType<typeof fsp.stat>> collapsed the bigint overload and broke prepare/typecheck on CI.

* Keep the bridge mtime stamp exact so same-size swaps still fail the pair check.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Wrap the bridge stamp predicate so prettier --check stays green.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Require a quiet interval before stamping a settled bridge file.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Reuse shared storage and settle helpers instead of local copies.

Co-authored-by: Cursor <cursoragent@cursor.com>

---------

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
2026-09-12 20:31:55 +00:00
azizur100389
3f5ca8cdb7
fix(storage): guard stale file-lock reclamation (#3234)
* fix(storage): guard stale file-lock reclamation

* fix(storage): close lock recovery failure paths

* Address PR review feedback (#3234)

- Flush the lock-child stderr diagnostic before process.exit
- Treat explicit NaN timeouts as the default ceiling
- Document non-retryable guard timeouts on the worker IPC contract

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(storage): stop mislabeling live lock waits as orphan recovery

A brief peer inspect must not attach guardPath or send operators to
RUNBOOK delete steps. Refuse lock-free embeddings sync, stop --watch
only on a true guard timeout, and drop an unreadable self-created
guard before failing closed.

Co-authored-by: Cursor <cursoragent@cursor.com>

* chore(autofix): apply prettier + eslint fixes via /autofix command

* Address PR review feedback (#3234)

- Verify lock/guard absence before degrading a denied main-lock create
- Launch the third contender from unlinkSync, not the dead rename path
- Document group-lock timeouts for unrecoverable guard leftovers

Co-authored-by: Cursor <cursoragent@cursor.com>

* style: prettier index-lock reclaim guard tests

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(storage): treat O_EXCL as the lock-file presence check

CodeQL flagged existsSync-then-wx on analyze.lock. Create with wx first and
only reclaim unreadable leftovers after grace, so a successor is never
unlinked from a lost race.

Co-authored-by: Cursor <cursoragent@cursor.com>

---------

Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
2026-09-12 11:47:12 +01:00
Gergő Magyar
af2d9aec15
refactor(fts): share skip-FTS helpers and capability defaults (#3263)
* refactor(fts): share skip-FTS helpers and capability defaults

Keep analyze, repair, and HTTP open paths on one option/capability object so the same stamp cannot drift.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(lbug): keep initLbug options as skipFts-only

Restore the public initLbug and ensureFtsRowDmlSafe option shapes so one-arg callers stay on the pre-#3263 contract.

Co-authored-by: Cursor <cursoragent@cursor.com>

* revert(lbug): drop LbugInitOptions alias that tripped contract-drift

Keep the session option objects as inline types so initLbug's public signature matches main byte-for-byte.

Co-authored-by: Cursor <cursoragent@cursor.com>

---------

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
2026-09-11 20:17:18 +01:00
azizur100389
f8036ac349
feat(analyze): add explicit FTS opt-out (#3205)
* feat(analyze): add explicit FTS opt-out

* chore(autofix): apply prettier + eslint fixes via /autofix command

* fix(analyze): treat flag and env FTS opt-out as one mode

Avoid a same-commit rebuild when only the skipReason discriminator
changes, and advertise disablement on dirty meta before leftover
indexes are wiped.

Co-authored-by: Cursor <cursoragent@cursor.com>

---------

Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
2026-09-11 14:05:28 +00:00
Gergő Magyar
7bbaf6b73b
fix(review): fail closed on foreign embedding identity and vector-width drift (#3260)
Applied from a ce-code-review pass over this branch (run 20260911-053832-b49f88d6).

- `embeddings sync` now gates EVERY checkpoint kind on embedding identity.
  `unverified-count` was exempted, but `decideEmbeddingResume` abandons that
  kind before it compares identity, so the exemption was the only thing
  keeping a foreign model from filling holes beside the old model's vectors —
  two vector spaces in one CodeEmbedding table, reported healthy. The test
  that asserted this run succeeds now asserts the refusal.

- `embeddings sync` refuses when the index's recorded vector width differs
  from this run's. The column is FLOAT[N] fixed at build time and the pipeline
  deletes each batch's stale rows immediately before inserting, so a width
  change deleted rows it could not re-insert. `analyze` already forces a
  rebuild on the same mismatch; only a rebuild can retype the column.

- `GITNEXUS_EMBEDDING_RETRY_TIMEOUTS` parses with the repo's truthy convention
  (`1`/`true`/`yes`). The integer parser threw on `true`, so the conventional
  spelling hard-failed every embedding call rather than enabling the flag or
  leaving it off. README names the accepted spellings.

- One `persistMeta` write path replaces three inlined metadata
  read-modify-writes; #2790 traced two production drifts to hand-copied
  writers of these exact fields.

- Tests: the pipeline mock now invokes `onCheckpointWindowStart`/`onCheckpoint`,
  so the resume contract actually executes under test. Added coverage for the
  incomplete-index refusal, the partial-checkpoint branch, and the body-read
  timeout retry site that the existing opt-in test never reached.

Verified: tsc --noEmit clean; 99 tests pass across the three affected suites;
prettier clean.

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Claude Opus 5 (1M context) <noreply@anthropic.com>
2026-09-11 07:37:08 +00:00
Ankit Verma
8bd71c8335
feat(staleness): report diverged and unknown index state instead of fresh (#3257)
* feat(staleness): report diverged and unknown index state instead of fresh

A staleness check collapsed every git failure into { isStale: false,
commitsBehind: 0 }. On a branch-pinned serve clone, a failed re-index
leaves the recorded commit orphaned by the --depth 1 fetch; once the
reflog expires and gc prunes it, rev-list fails and the index silently
reads as fresh while still behind.

checkStaleness / checkStalenessAsync now return an additive status:
current, behind, diverged (rev-list failed but HEAD resolved and differs
from lastCommit) or unknown (HEAD unresolvable, no lastCommit, timeout).
isStale and commitsBehind keep their values in every case.

One payload builder (core/staleness-status.ts) feeds MCP list_repos, the
hot read tools and /api/repos + /api/repo. diverged carries a hint and no
invented count; unknown appears on listings only. The helpers live in a
pure module so existing vi.mock stubs of git-staleness stay valid.

gitnexus group status no longer prints "-1 commits behind".

Fixes #3256

Co-Authored-By: Claude Opus 5 <noreply@anthropic.com>

* Address PR review feedback (#3257)

- Document the `current` arm `fromHead` can return after a failed `rev-list`.
  The `staleness-status.ts` status list, the `fromHead` docstring and the
  `stalenessForTool` comment each named only `diverged`/`unknown`, so all three
  described a contract the helpers do not have.
- Document both `unknown` rows on the group status type: no recorded commit
  (`indexStale: true`, `commitsBehind: -1`) and a git probe that could not
  answer (`indexStale: false`, `commitsBehind: 0`), which do not agree on
  either field.
- Update both shipped `gitnexus-guide` copies to the new wire shape
  (`{ status, commitsBehind?, hint? }`), add a `diverged` example carrying no
  count, and state `unknown` is reported only by the `list_repos` listing.
  Presence now means "not `current`", not "behind N". Pinned in
  shipped-skills-sync.
- Lock the timed-out `rev-list` short-circuit with staleness-timeout.test.ts:
  it asserts `unknown` from exactly one git spawn, so removing the `killed`
  guard (which would probe HEAD again and double the #3232 bound) now fails.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* Claim only the uncountable gap in the diverged hint (#3257)

`fromHead` reaches the `diverged` branch on any non-timeout `rev-list` failure
where `rev-parse HEAD` resolves to a different SHA. It compares the two SHAs and
runs no reachability check, so a transient object-read failure lands there while
`lastCommit` is still an ancestor of HEAD — and the hint told the operator the
commit was gone from history. `staleness-status.ts` already documents `diverged`
as only "provably not at HEAD; the count is unknown", so the string was also the
one place contradicting its own contract.

The hint now states what the check established and hedges the usual cause:
"Index is not at HEAD and the commit gap could not be counted — the recorded
commit may no longer be in this clone's history."

Updated with it: the `staleness.test.ts` diverged assertion, and the `diverged`
example plus its lead-in sentence in both shipped `gitnexus-guide` copies (still
byte-identical). `mcp/resources.ts` needs no change — it interpolates
`staleness.hint`, holding no copy of the text.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(staleness): cover the remaining #3256 review test gaps

The tri-review's lower-priority gaps, each now locked:

- staleness-fallback.test.ts: after a failed (not timed-out) rev-list,
  both helpers report `current` when HEAD alone still resolves to the
  indexed commit, `diverged` when it resolves elsewhere, and `unknown`
  when it cannot be read, each from exactly rev-list + rev-parse. This
  complements staleness-timeout.test.ts: a timeout spawns once, any other
  failure probes HEAD.
- list_repos carries the listing-only `unknown` and a count-free
  `diverged`; `current` carries nothing.
- group status: a resolvable repo with no recorded commit composes to
  indexStale: true, commitsBehind: -1, status: unknown and renders as
  "STALE (? commits behind)", through the real groupStatus path rather
  than a hand-built row.

Each test was checked against a mutation of the code it guards (the
fromHead current arm, the group no-commit literal, list_repos
includeUnknown); every mutation fails its test.

Co-Authored-By: Claude Opus 5 <noreply@anthropic.com>

---------

Co-authored-by: tech-admin3 <tech-admin@kodnest.com>
Co-authored-by: Claude Opus 5 <noreply@anthropic.com>
Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
2026-09-11 08:07:37 +01:00
panbergco
32a5fc3c4f
feat: Make long HTTP embedding jobs resumable (#3065)
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* Make long HTTP embedding jobs resumable

Retry endpoint timeouts when explicitly configured, creating a fresh abort signal for every attempt. Add gitnexus embeddings to fill an existing index in place: every successful batch is durable, and rerunning skips vectors whose content hash still matches instead of rebuilding the structural graph.

* Address PR review feedback (#3065)

Hold the per-index lock around embeddings sync, fail closed on a foreign-identity partial checkpoint, and refuse to create an empty DB from leftover metadata. Use the canonical embedding count, keep closeLbug from masking the real error, load hashes instead of full vectors, and document GITNEXUS_EMBEDDING_RETRY_TIMEOUTS.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Split embeddings sync off the install module so install no longer loads Ladybug.

Share the opt-in TimeoutError wrap between fetch-throw and .json(), and cover a non-file LadybugDB path.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Describe embeddings sync checkpoints as periodic and report cached node count.

Pipeline checkpoints every 5,000 nodes, and fetchExistingEmbeddingHashes is keyed by nodeId, not vector rows.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Leave an unverified-count checkpoint when embeddings sync cannot count rows.

A finished run must not keep an interrupted window marker; the next sync should re-derive the count instead of hitting the identity gate.

Co-authored-by: Cursor <cursoragent@cursor.com>

* chore(autofix): apply prettier + eslint fixes via /autofix command

---------

Co-authored-by: panbergco <panbergco@users.noreply.github.com>
Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
2026-09-10 19:48:50 +01:00
Navid EMAD
506432017f
fix(zig): model callable-value references, and stop reporting their absence as exact (#3219)
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* fix(impact): stop reporting 'exact' over unmodelled callable-value references

A function named in VALUE position — `bridge.accessor(Element.getNamespaceUri,
null, .{})`, `{ onClick: handler }`, a comparator handed to a sort — is
registered somewhere rather than called. The registration is modelled (a
`value-ref` site becomes a USES edge; Kythe `ref` vs `ref/call`, Joern
METHOD_REF), but the invocation THROUGH the stored value is not: it happens
later via a struct field, a registry lookup or comptime reflection.

impact()/context() nonetheless reported such a target as `epistemic: 'exact'`.
For lightpanda-io/browser that meant the DOM `Element.namespaceURI` accessor
came back with two internal callers, LOW risk and a claim of completeness —
worse than no answer, because 'exact' tells the reader not to look further.
tools.ts defines 'lower-bound' as "the walk provably missed callers", which is
precisely this case.

computeEpistemicBoundary now probes for inbound USES edges stamped with the
value-ref reason and hedges when it finds any, contributing a boundary note and
a new `causes.callableValueReferences` (unit: distinct referrer symbols).

Read from the graph, not from index metadata: unlike a dropped receiver — which
leaves no edge to find and therefore needs a persisted summary — a value
reference IS in the graph. So the signal needs no re-index and no analyzer
change, and it works on indexes written before this commit.

The cause gets its own slot rather than joining `dispatchBoundary`: a value
referrer is neither an implementation nor an interface-level consumer, and the
two differ in what the reader should do about them — a dispatch boundary is
irreducible, a callable value usually becomes traceable once the provider
models the store/load that carries it.

Language-neutral: every provider that emits a `value-ref` capture participates.
The writer and the reader now share VALUE_REF_EDGE_REASON, because drift
between them would fail silently — the probe would match nothing and every
answer would go back to claiming certainty.

* fix(zig): emit `value-ref` for a callable named in value position

`mapReferenceKindToEdgeType` has handled the registration-vs-invocation case
since #2437, and TypeScript, JavaScript and C++ all emit `value-ref`. Zig
emitted zero — so a Zig function handed somewhere as a VALUE was absent from
the graph entirely.

That is not a corner: Zig's JS bridge is built out of this one shape,

    pub const namespaceURI = bridge.accessor(Element.getNamespaceUri, null, .{});

and `bridge.{accessor,function,indexed,…}` appears 2,047 times across 257 files
in lightpanda-io/browser — the project's whole JS<->Zig surface, none of it
reaching the graph. `impact` on `Element.getNamespaceUri`, which IS the DOM
`Element.namespaceURI` accessor, answered with its two in-file callers.

Three query rules, tagging `@reference.value-ref` on: a bare identifier in
argument position (`bridge.accessor(_tagName, …)`), a qualified one
(`bridge.accessor(Element.getNamespaceUri, …)`), and a const binding initialiser
(`pub const defaultHandler = onReset;`). Everything downstream already existed —
no new edge type, no schema change, no capture-machinery change, no baseline
edited.

One grammar detail is load-bearing: in tree-sitter-zig, call arguments are
DIRECT children of `call_expression` — there is no `arguments` node, only
builtins have one — so the callee has to be consumed explicitly by `function:`.
Without that binding the same rule also matches the callee of `foo(bar)` and
mints a USES edge shadowing the call's own CALLS edge. There is a test for it.

The rules are deliberately broad — `js.Bridge(Element)` and `register(count)`
match too — because the callable gate in the property-dispatch pass
(Function/Method/Constructor only) is the filter, the same design that keeps
TypeScript's `{ port: DEFAULT_PORT }` from registering anything. Measured on the
real corpus: all 3,169 emitted edges land on a Method (3,146) or Function (23).

Deliberately NOT modelled: the terminal invoke. The value reaches
`Accessor.init` -> a struct field -> `Factory.zig` reflection (`inline for`,
`@typeInfo`) -> `Caller.zig`'s `@call(.auto, func, args)` over `func: anytype`.
Resolving that needs comptime evaluation. The point is to stop dropping the
reference; the shortfall is now reported as `epistemic: "lower-bound"` by the
preceding commit instead of being papered over.

Measured on lightpanda-io/browser (698 .zig files), wiped index both times:
30,222 nodes / 71,070 edges -> 30,222 nodes / 74,229 edges. The delta is
entirely `USES` (3,169 after vs 10 before, and every one is a value-ref); CALLS,
ACCESSES, IMPORTS, HAS_METHOD, DEFINES and the rest are unchanged — purely
additive, no node invented.

The fixture joins the existing `zig-idioms` corpus rather than adding a new
one, because `bench/receiver-resolution` uses `test/fixtures/lang-resolution` as
its `--check` corpus. That gate, `scope-capture` (15 languages),
`zig-cross-file-resolution` and every other bench `--check` pass unchanged.

* fix(review): resolve qualified value references through their owner, and stop
hedging on registrations the analyzer already followed

Five findings from the review bot on #3219; four valid, all addressed.

1. QUALIFIED VALUE REFERENCES RESOLVED BY TAIL NAME (the serious one).
   `bridge.accessor(Element.getNamespaceUri, …)` was resolved with
   `findCallableBindingInScope(site.inScope, site.name, …)`, which never sees
   the receiver and gives LOCAL bindings precedence. Reproduced:

       const Element = @This();
       pub fn getThing(...)                 // main.getThing
       pub const JsApi = struct {
           fn getThing(...)                 // JsApi.getThing
           pub const thing = bridge.accessor(Element.getThing, null, .{});
       };

   emitted `USES JsApi → JsApi.getThing` — a WRONG edge, which is worse than
   the missing edge this PR set out to fix.

   `resolveValueRefTarget` now resolves a site carrying an explicit receiver
   through `findClassBindingInScope` → `findOwnedMember` (the machinery
   `receiver-bound-calls` already uses), gated on `CALL_TARGET_TYPES` because
   `findOwnedMember` also answers with fields. A bare site keeps the lexical
   walk, which is what an unqualified name means. When the owner cannot be
   resolved the site is DECLINED rather than falling back: declining costs a
   reference, falling back mints a confident edge to the wrong function, and
   the missing reference is now reported as `lower-bound` anyway.

   Cost on lightpanda-io/browser: value-ref edges 3,169 → 2,799 (−12%). Those
   370 were tail-name coincidences, not registrations — all 94 `Element.zig`
   `JsApi` entries survive, the cross-container case resolves and is correctly
   attributed (`IntersectionObserverEntry.JsApi` → `IntersectionObserverEntry.
   getTarget#0`, not the enclosing observer), and both acceptance probes are
   unchanged: `getNamespaceUri` 7/3/LOW/lower-bound, `getTagNameLower`
   31/10/HIGH/exact.

2. A FAILED PROBE READ AS "NO BOUNDARY". `.catch(() => [])` turned an
   unanswerable query into count 0 and no note, so `exact` could be published
   on the strength of a question that was never asked. It now returns `null`
   and emits a boundary note. This file's own `loadMeta` comment states the
   rule: a probe failing must never read as certainty.

3. NOT EVERY VALUE REFERENCE IS AN UNMODELLED INVOCATION. Where
   `emitPropertyDispatchCalls` sweep 2 synthesized the dispatch (reason
   `property-dispatch`), the walk did NOT provably miss the caller, so hedging
   was noise over an answer that was computed — and a signal that fires on
   every JS/TS hook table stops carrying information. A second probe excludes
   those targets. Zig never sets a property key, so the motivating case is
   untouched. The exclusion is symbol-level, not per-edge, because the graph
   does not record which registration produced which synthesized call; that
   residual is documented at the call site.

4. `LIMIT 50` SILENTLY UNDERSTATED THE COUNT. `rows.length` over a capped row
   set published a ceiling as the documented symbol count. Replaced with
   `COUNT(DISTINCT other.id)` — bounded work without a bounded answer, the
   shape `countByType` in the same file already uses.

5. THE TEST DID NOT PIN THE CALLER COUNT its own comment promised. Added
   `expect(result.impactedCount).toBe(2)`.

New regression tests: qualified references bind the written owner and not the
nearer lexical match; an unresolvable receiver emits nothing rather than a
wrong edge; a dispatch-modelled registration stays `exact`; a probe that cannot
run hedges instead of claiming certainty.

Known limitation, pinned by a test rather than left implicit: when a `@This()`
alias's NAME differs from its container's (`const Element = @This();` inside
`main.zig`), the receiver does not resolve and the reference is declined. The
provider has `rewriteZigThisAlias` for this, but it is applied to type nodes
and extending it to reference receivers would change existing CALL-site
behaviour. Lightpanda's `const Foo = @This();` in `Foo.zig` convention makes
the names coincide, which is why the corpus is unaffected.

* fix(review): bump the parse-cache schema and resolve module-owned value references

Review round 2 on #3219. Four inline items, all reproduced against the
worktree before deciding.

P1 — the new captures could stay INERT on a warm parse cache. Adding
`@reference.value-ref` rules to `ZIG_SCOPE_QUERY` changes
`ParsedFile.referenceSites`, which is a PARSE-TIME fact, but `SCHEMA_BUMP`
stayed at 93. A repo indexed before this branch and re-analyzed after it
replays the old, empty site list for every unchanged `.zig` file — `--force`
included, since shards are content-addressed — so no USES edge is emitted, the
boundary probe measures a real zero, and `impact` on a registered accessor goes
back to `epistemic: "exact"`. #3399 un-fixed on the incremental path most users
are on, with every cold-run test still green. DECISIONS D1-1's "zero changes to
… the schema" conflated the graph schema with the cache schema.

Bumped 93 -> 98, not 94: #3190 claims 94 and #3179 claims 94 through 97 in one
PR. `incremental-parse-cache.test.ts` re-pinned, with 93-97 added to the taken
list. Re-check against origin/main and open PRs immediately before merging.

P2 — a qualified value reference through a MODULE was declined with no hedge.
R1-2 resolves a written receiver with `findClassBindingInScope`, which requires
`isClassLike`; a namespace-only `@import` handle is not class-like, so

    const dom_utils = @import("dom_utils.zig");   // no `@This()` in that file
    pub const comparator = bridge.accessor(dom_utils.compare, null, .{});

resolved to nothing. That is not the conservative half of R1-2's trade-off: a
declined site emits NO edge, so there is nothing for the probe to read and
`impact` on `compare` reports `exact`. Silence, not a hedge — and the pass
comment claiming otherwise was wrong on this path.

`resolveValueRefTarget` now tries the second kind of owner a qualified name can
have. `findNamespaceValueRefTarget` reads the file's `namespace` import edges
for the handle and the target module's own `origin: 'local'` module-scope
bindings for the member — the same channel `receiver-bound-calls` Case 1
already trusts for `dom_utils.compare()`, with Case 1's three guards for Case
1's reasons: `isNamespaceNameShadowed`, local-origin bindings only, and two
distinct defs under one name resolve nothing. `CALL_TARGET_TYPES` gates module
owners exactly as it gates container owners. Language-neutral: it reads generic
namespace import edges, names no language.

Still declined, deliberately: a receiver this index knows under no name at all
(the `@This()`-alias case, owners outside the workspace). There the alternative
is a confident edge to a lexically-nearer function the source did not name.

P2 — `impact-callable-value-references.test.ts` was in neither vitest list.
It opens a real engine via `withTestLbugDB(poolAdapter: true)`, so TESTING.md
puts it in the `lbug-db` include list and the `default` exclude list; it was in
neither, so `default` also collected it into the parallel pool. Added next to
its `impact-epistemic-lower-bound` sibling in both arrays.

P3 — DECISIONS.md was stale against HEAD and embedded host paths. D2-3 still
described the `LIMIT 50` that R1-5 removed and D1-3 still described the
receiver-blind resolution that R1-2 replaced; both now carry explicit
"superseded by" pointers. The `~/code/...` and mise-node paths are replaced
with placeholders.

Two smaller corrections the new cause made necessary:

- `formatImpactResult`'s `lower-bound` header hard-coded "callers binding via
  DI / dynamic dispatch", which now contradicts the value-reference bullet
  printed directly under it. The bullets carry the cause; the header only
  states that the count is a floor.
- `tools.ts` said a `causes.callableValueReferences` of 0 means "nothing was
  missed". The dispatch exclusion is symbol-level, not edge-level, so a target
  with both a followed registration and an unfollowed escape also reads 0. The
  docs now say a 0 means "no unfollowed registration was proven".

Fixture: `src/webapi/dom_utils.zig` (namespace-only) plus three cases in
`Element.zig` — the module-qualified registration, a non-callable module member,
and a `u8` parameter shadowing the handle. The shadow case was verified to FAIL
with the guard disabled, so it is not passing for an unrelated reason.

Gates: `tsc --noEmit` clean, `npm run build` clean, prettier clean.
`resolvers/` 3,630 passed / 3 skipped; `unit/scope-resolution` 2,010 passed;
`impact-callable-value-references` 7 passed under `lbug-db`;
`incremental-parse-cache` 40 passed; eval formatters 104 passed. Bench --check
all PASS with no baseline edited: receiver-resolution, zig-cross-file-resolution,
scope-emission, callable-value-flow, scope-capture (15 languages), python-scope.

* fix(review): guard the class receiver against a shadowing binding, and pin the dispatchability partition

Review round 3 (`gitnexus-check` bot on `cf53bbaa`). Three findings, each
reproduced against the code before deciding.

R3-1 (Error, valid, REPRODUCED) — a CLASS receiver could resolve through a
shadowing value binding. `findClassBindingInScope` is a class-only walk: it
filters the scope chain by `isClassLike`, so it steps over a nearer binding that
is a value and keeps climbing — and past the chain entirely, into a
qualified-name fallback that answers with the unique workspace definition of the
name. A `u8` parameter named `Ticker`, in a file that neither declares nor
imports the `Ticker` container another file defines, therefore emitted
`register(Ticker.fire)` as a confident USES edge to that container's method.
That is exactly the wrong-edge failure R1-2 exists to prevent, arriving through
the class channel instead of the lexical one.

Fixed with `isOwnerNameShadowedBySomethingElse` — a sibling of
`isNamespaceNameShadowed` with one extra clause. The plain namespace guard could
NOT be reused: a container is often its own local declaration
(`fn make() { const Local = struct {…}; register(Local.go); }`), and reading that
binding as its own shadow suppresses precisely the resolutions this path exists
to make — the #2723 mistake, one channel over. So a scope that binds the name
answers immediately, and the answer is "not shadowed" only when one of that
scope's own bindings IS the def just resolved.

Both halves are pinned and both were verified to fail when the guard is
weakened: the parameter case fails with no guard at all, the local-container
case fails with the plain `isNamespaceNameShadowed`.

R3-2 (Warning; mechanism correct, unreachable today; fragility fixed instead) —
the dispatch exclusion could suppress an unfollowed registration. The bot is
right about the code: sweep 2 synthesizes CALLS only for a registration whose
site carried a `propertyKey`, while the exclusion zeroes the note on ANY inbound
`property-dispatch` CALLS edge. It is not reachable in the current rule set, and
the reason is measured rather than assumed: `@reference.value-ref` is emitted by
exactly three languages — JavaScript (2 rules), TypeScript (2), Zig (3) — every
JS/TS rule also captures `@reference.property-key` (both are object-literal
shapes) and no Zig rule does. A dispatchable registration is therefore always a
JS/TS one, an undispatchable one always a Zig one, and they cannot meet on one
symbol.

Rejected: splitting the edge `reason` into dispatchable / undispatchable. It is
the precise fix, but it is a graph-content change that churns whichever side
keeps the old literal — the Zig, TypeScript and probe suites all pin
'scope-resolution: value-ref' by hand as a drift canary — and it buys nothing
against a case no rule can produce.

What was actually wrong is that the exclusion's soundness rested on a
coincidence recorded nowhere, in files nobody reading `local-backend.ts` would
open. Fixed at both ends: the exclusion site now states the invariant, the three
facts it rests on and the two options for when it breaks; and
`value-ref-dispatchability.test.ts` fails the day it does — a JS/TS rule for a
bare callback argument, a Zig rule that grows a key, or a fourth language
emitting `value-ref` at all. Verified to fire (adding a property key to a Zig
value-ref rule fails the Zig case), and its rule splitter has its own guard test
so the suite cannot pass vacuously. `ZIG_SCOPE_QUERY` is exported for that test
only.

R3-3 (Nit, valid) — a test comment claimed the wrong epistemic result. The
`declines a qualified reference whose receiver cannot be resolved` case said the
shortfall shows up as `lower-bound`. It does not: with no edge there is no
evidence and the target stays `exact`. The pass docstring was corrected in round
2 and this comment was missed. It now says the decline costs the reference AND
the hedge, and why that is still the right trade.

Gates: tsc --noEmit clean, npm run build clean, prettier clean.
`test/integration/resolvers` 3,632 passed / 3 skipped (70 files);
`test/unit/scope-resolution` 2,015 passed (120 files);
`impact-callable-value-references` 7 passed under `lbug-db`. Bench --check:
receiver-resolution, zig-cross-file-resolution, scope-capture (15 languages),
scope-emission PASS with no baseline edited; callable-value-flow failed once on
its TIMING budget (2.006 > 1.9) with a byte-identical fingerprint, then passed
twice at 1.788 / 1.813 — machine load, not a regression.

* fix(review): let a file's own `@import` outrank the workspace-wide class fallback

Found by running the local preflight harness before pushing rather than after.
One of its five findings is a real hole in R2-2; the rest are documentation that
overclaimed.

R4-1 (valid, REPRODUCED) — the container channel preempted the file's own
`@import`. R2-2 added the module channel as a FALLBACK after
`findClassBindingInScope`, and that order is wrong: `findClassBindingInScope`
does not stop at the scope chain. When its `isClassLike` walk misses — and a
namespace handle binds a Module, so it always misses — it falls back to
`scopes.qualifiedNames`, a workspace-wide index, and answers with the unique def
of that name anywhere in the repo. A container named `dom_utils` in a file
`Element.zig` never imports therefore captured
`bridge.accessor(dom_utils.compare, …)`, binding
`Method:src/webapi/decoy.zig:dom_utils.compare#2` while the module channel that
would have answered correctly was never reached. R3-1's shadow guard cannot
catch it: the import binds at MODULE scope, which that guard treats as the floor.

Fixed by trying the module channel FIRST. An `@import` written in this file is
the strongest available statement about what the name means here and outranks a
global uniqueness guess; when the handle is not an import of this file the
channel answers nothing and the container path runs exactly as before. Pinned by
`decoy.zig` and a strengthened assertion on the existing module-owner test,
which fails on the old order.

R4-2 — the cause documentation named shapes nothing captures. `tools.ts`
illustrated `callableValueReferences` with "a callback argument", "a stored
function pointer" and `qsort(xs, n, sz, compareItems)`. Only Zig captures a call
argument or a const initialiser; JS/TS capture only object-literal property
values, and C has no value-ref rule, so the `qsort` example is counted in no
language. Both cause blocks now name the captured shapes and say that a bare
JS/TS callback argument is not among them, so a 0 does not rule it out.

R4-3 — the same block exempted itself from the re-index caveat this PR proves it
needs. "Read from the graph, so it needs no index-time metadata" is true of the
probe and false of the edges: an index built before a language emitted these
captures has none and reports 0 — the warm-cache failure R2-1 bumped
SCHEMA_BUMP for. It now says to re-analyze before reading a 0 as measured.

R4-4 — the dispatchability canary was narrower than its own promise. Its header
claimed it fails on "a fourth language emitting value-ref at all"; it reads
`languages/<dir>/query.ts`, so Vue — which owns no query and borrows
`emitTsScopeCaptures` / `emitJsScopeCaptures` — emits value-refs while the
assertion lists three languages, and a capture synthesized in code is invisible
to it. The case now asserts on query OWNERS, which is what it checks and is
sound because a delegating language inherits the rules it borrows; the header
states the synthesized-capture gap instead of letting a green tick imply it away.

R4-5 — the BARE docstring described a lexical walk that is not one.
`findCallableBindingInScope` applies the callable predicate WHILE walking, so a
nearer parameter or local is stepped over: the defect R3-1 fixed on the container
channel, unguarded here, pre-existing since #2437 and reachable in JS/TS. Out of
scope for #3399, so behaviour is unchanged and the sentence now says what the
walk does rather than implying a guarantee it does not give.

Gates: tsc --noEmit clean, npm run build clean, prettier clean.
`test/integration/resolvers` 3,632 passed / 3 skipped (70 files);
`test/unit/scope-resolution` 2,015 passed (120 files);
`impact-callable-value-references` 7 passed under `lbug-db`. Bench --check:
receiver-resolution, zig-cross-file-resolution, scope-capture (15 languages),
scope-emission, callable-value-flow all PASS with no baseline edited.

* fix(review): honour the hub opt-in for value references, so `hub.fn` means one thing

Review round 5 (`gitnexus-check` bot on `1c7c05ff`). One finding, valid and
reproduced before fixing.

`findNamespaceValueRefTarget` accepted only `ref.origin === 'local'`. R2-2
recorded that as deliberate — "the `namespaceExportsIncludeImportedNames` hub
opt-in is a provider decision this language-neutral pass does not make" — and
that reasoning was wrong twice over. Zig sets the flag
(`languages/zig/scope-resolver.ts:41`, measured on ghostty and tigerbeetle before
it landed), and the pass does have the provider in scope: `runScopeResolution`
takes one and already forwards several of its hooks to other passes.

The result was the exact asymmetry R2-2 argued against in its own first
paragraph. A Zig hub declares nothing — every name it publishes it imported — so
requiring a local declaration declines every member reached through one:

    // hub.zig
    pub const scale = @import("dom_utils.zig").scale;

    // Element.zig
    const hub = @import("hub.zig");
    pub fn callsThroughTheHub(v: u8) u8 { return hub.scale(v); }   // resolved
    pub const scaled = bridge.accessor(hub.scale, null, .{});      // declined

One name meaning two different things depending on whether a `(` follows it.

Fixed by forwarding `provider.namespaceExportsIncludeImportedNames` into the pass
and consulting the published channel when it is set — the same question
`receiver-bound-calls` Case 1 asks, through the same `lookupBindingsAt` read
`findExportedDefIncludingImportedNames` performs for the CALL form. The pass
still names no language; it asks the provider, which is the sanctioned hook.

Precedence is unchanged where it mattered: a locally declared member still wins
over a republished one, two distinct defs under one name still resolve nothing,
and `CALL_TARGET_TYPES` still gates the answer — pinned by `hub.DEFAULT_NS`, a
re-exported CONSTANT, which stays unregistered. Languages that do not opt in are
unaffected: the parameter defaults to `false`, and passing `false` was verified
to fail the new hub test, so it is load-bearing. The fixture republishes a member
(`scale`) that nothing else uses, so the hub assertion cannot be satisfied by an
edge another case emitted.

Gates: tsc --noEmit clean, npm run build clean, prettier clean.
`test/integration/resolvers` 3,634 passed / 3 skipped (70 files);
`test/unit/scope-resolution` 2,015 passed (120 files);
`impact-callable-value-references` 7 passed under `lbug-db`. Bench --check:
receiver-resolution, zig-cross-file-resolution, scope-capture (15 languages),
scope-emission, callable-value-flow all PASS with no baseline edited.

Also recorded in DECISIONS.md: `/autofix` returned "No successful autofix run"
because the `PR Autofix` run on `1c7c05ff` failed at `actions/upload-artifact`
with a 403 from GitHub's artifact storage, not because of anything in this
branch. This push triggers a fresh run.

* fix(review): inspect the module scope in the owner-shadow guard, and check the TSX suffix

The `gitnexus-check` pass on `bd6e577e` carried three findings of its own, and I
answered the later `1c7c05ff` pass without noticing them. Recording that as a
process failure too: bot reviews are per-head, and a later pass does not
necessarily repeat an earlier one's findings.

R6-1 (Error, valid, REPRODUCED) — the shadow guard stopped one rung short.
`isOwnerNameShadowedBySomethingElse` returned `false` on reaching the module
scope, justified as "a container declared there IS the binding, and the caller
already resolved it". That holds when the owner came from the scope chain and
fails when it came from the workspace-wide qualified-name fallback:

    // Gauge.zig — never imported by Element.zig
    const Gauge = @This();
    pub fn read(self: *Gauge) u8 { … }

    // Element.zig
    const Gauge = @import("dom_utils.zig").DEFAULT_NS;          // NOT a container
    pub const level = bridge.accessor(Gauge.read, null, .{});   // → Gauge.zig's read

`findClassBindingInScope` steps over the module-scope binding because it is not
class-like, answers from `scopes.qualifiedNames`, and the guard waved it through.

Worth recording: the first fixture attempt did NOT reproduce. A local
`const Gauge: u8 = 3;` also claims the workspace qualified name `Gauge`, leaving
two candidates, and the fallback refuses to guess between two — so the shape
defeated itself. Binding the name by IMPORT claims no qualified name, the
fallback stays unique, and it fires. A negative result on the first shape was not
evidence the finding was wrong.

Fixed by inspecting the module scope as the last rung instead of skipping it.
The identity exemption is what makes that safe where `isNamespaceNameShadowed`
cannot do it (#2723: a namespace import writes its own name into the module scope
and would read as its own shadow) — the binding that IS the owner exempts itself,
and only a binding to something else answers `true`. `lookupBindingsAt` is
consulted at that scope and only there, because an imported alias lives in the
finalized channel rather than in `scope.bindings`.

R6-2 — the hub re-export finding, already fixed in `5d8fe9d8`; the same defect
restated on the later head.

R6-3 (valid, fixed) — the dispatchability canary omitted the TSX suffix.
`getTsScopeQuery` analyzes a `.tsx` file with `TYPESCRIPT_SCOPE_QUERY +
TSX_JSX_QUERY_SUFFIX`, and the test read only the base, so a `value-ref` rule
added to the suffix would be emitted in TSX analysis with the canary green. The
suffix is now exported and concatenated into the check; verified load-bearing by
adding an unkeyed `jsx_expression` value-ref rule to it, which fails the
TypeScript case.

Gates: tsc --noEmit clean, npm run build clean, prettier clean.
`test/integration/resolvers` 3,635 passed / 3 skipped (70 files);
`test/unit/scope-resolution` 2,015 passed (120 files);
`impact-callable-value-references` 7 passed under `lbug-db`. Bench --check:
receiver-resolution, zig-cross-file-resolution, scope-capture (15 languages),
scope-emission, callable-value-flow all PASS with no baseline edited.

* perf(bench): gate callable-value reference resolution on linear scaling

`resolveValueRefTarget` (#3399) replaced one lexical walk with four
channels, and the last of them — a qualified receiver resolved through
`findClassBindingInScope` — falls back to `scopes.qualifiedNames`, a
WORKSPACE-WIDE index consulted once per site. Keyed that is O(1); scanned
it is O(files) per site, and a registration table that costs O(sites)
today costs O(sites x files) tomorrow. Nothing in the suite can see that:
the fixtures are single-file, and the corpus it actually matters on is
lightpanda-io/browser, where `bridge.{accessor,function,…}` appears 2,047
times across 257 files.

`bench/value-ref-resolution/measure.mjs` builds two synthetic Zig corpora
of identical shape 4x apart in file count, and times ONLY the per-site
resolution loop — extraction, `reconcileOwnership` and finalize are setup.
`linear_factor` is `(t_large/t_small)/(N_large/N_small)`: measured
1.00-1.09 across runs, with `us_per_site` flat at 1.4-1.5 between the arms.

Correctness comes first, because a timing gate alone is satisfied by a fast
wrong answer: exact site/resolved/declined counts per arm plus an
order-independent sha256 over every (site -> resolved target) pair. The
corpus exercises all four channels — CONTAINER, NAMESPACE, HUB and BARE —
and carries two DECLINE controls per module (a non-callable namespace
member, a non-callable bare argument), so a widened callable gate moves
`declined` instead of hiding inside the timing.

Verified load-bearing rather than assumed: making the qualified lookup scan
a workspace-sized collection leaves the fingerprint IDENTICAL and takes
`linear_factor` to 3.752 against a slack of 1.375 — the regression class
this exists for is exactly the one no correctness gate can see.

Zig is the corpus because it is the only language whose provider sets
`namespaceExportsIncludeImportedNames`, so it is the only one that can
exercise the hub channel at all; the pass itself names no language.

`resolveValueRefTarget` is exported for the bench. Timing
`emitPropertyDispatchCalls` instead would fold the signal into edge
emission, and re-implementing the channel order in the bench would pin the
bench's idea of the function rather than the function.

* feat(zig): index every build package in the repo, not only the root one

Zig already had workspace setup — `loadZigBuildConfig` has parsed
`build.zig.zon` `.path` deps, the root `build.zig`'s named modules and each
build module's own `addImport` table since #1432, threaded through
`ScopeResolver.loadResolutionConfig` exactly as tsconfig is for TypeScript.
What it did not have is the part `tsconfigFor` supplies: per-package scope.

`loadZigBuildConfig` reads `<repoRoot>/build.zig{,.zon}` and nothing else, so
a repo laying its packages out as `packages/<name>/build.zig` — no root build
files at all — got `null`, and EVERY bare `@import("<module>")` in it went
unresolved. Cross-file resolution silently degraded to relative imports.
Measured on a two-package probe before this change: `config = null`,
`@import("core")` from `packages/app/src/main.zig` → `null`.

`loadZigWorkspaceIndex` discovers packages the way `findTsconfigFiles`
discovers configs — one bounded breadth-first walk that skips the hardcoded
ignore set — and `zigPackageFor` is the `tsconfigFor` analogue: the nearest
enclosing package governs a file, deepest-first, with no fall-through to an
outer package. Fall-through is what makes a vendored dependency's
`@import("config")` resolve to the outer repo's `config` module, the same
failure `loadTsconfigIndex` documents for a package declaring no `baseUrl`.

`resolveZigImportInternal` is UNCHANGED — impact analysis puts it at HIGH risk
with 6 dependents, and it does not need to move: it is handed one package's
config, and which config it receives is the only difference. Its 48 existing
tests pass untouched. A nested package's paths are rebased to repo-relative at
load time (`.path = "../core"` → `packages/core`, which the root-relative
reading rejects outright as an escape); the ROOT package keeps its raw
spelling, which is what `parseZigBuildZon` promises and its tests pin, so a
single-package repo is byte-identical.

`loadImportConfigs` — which runs unconditionally for every repo, Zig or not —
keeps calling the root-only loader, so no non-Zig repo pays for the walk. That
is the split TypeScript already has between the cheap `loadTsconfigPaths` and
the repo-walking `loadTsconfigIndex`, which `loadResolutionConfig` reaches only
during a language pass.

The `zig-monorepo` fixture carries the discriminating case rather than only the
happy path: `tool` binds the alias `core` to its OWN `src/core.zig`, so a
repo-wide flattened module map — the shape a workspace index invites — would
point `measure` at `packages/core`, a confident edge into a package `tool` does
not depend on. That is worse than the unresolved import this fixes, and only
per-package scoping keeps them apart.

Tests: 7 unit cases pinning the index (including `loadZigBuildConfig` answering
`null` on the same fixture, side by side) and 3 integration cases pinning the
EDGES — cross-package CALLS from the module root AND from a non-root file, and
`tool` not crossing over. Verified load-bearing: restricting the index to the
root package fails all three.

Second consumer caught by the integration test and fixed with it:
`populateZigWorkspaceStaticGating` reads the same `resolutionConfig`, per file
because two files of that pass can belong to different packages.

Gates: build clean, `tsc --noEmit` clean, prettier clean, eslint 0 errors.
`test/integration/resolvers` 3,768 passed / 4 skipped, `test/unit/scope-resolution`
2,015 passed. Bench `--check` with NO baseline edited: `receiver-resolution`
(whose corpus is `test/fixtures/lang-resolution`, where the fixture lands),
`zig-cross-file-resolution`, `value-ref-resolution`, `scope-capture` (15
languages), `import-target`, `callable-value-flow`, `scope-emission`.

* perf(zig): dequeue the package walk by head index, not `shift()`

`findZigPackageDirs` pushes children while it drains the queue, which keeps
the array in a mode where `Array.prototype.shift()` memmoves the whole
remainder rather than taking V8's left-trimming fast path — so the walk is
quadratic in the frontier, bounded only by `ZIG_SCAN_MAX_DIRS` (20,000).

Measured at that bound rather than estimated from the move count: 53 ms at
fan-out 4 and 81 ms at fan-out 20, against 0.8 ms with a head index — 66-106x,
and paid before a single config is read.

FIFO order is unchanged, and the package ordering never depended on the walk
anyway: `loadZigWorkspaceIndex` sorts by (dir length desc, localeCompare).
Memory is unchanged too — the entries were already retained by the pushes;
`shift()` only dropped the head.

`findTsconfigFiles` and `loadNodeWorkspacePackages` carry the same walk with
the same bound and are equally affected. Deliberately NOT fixed here: they are
pre-existing, outside this PR's diff, and reach TypeScript/Node import
resolution, which nothing in this change set covers. Filed separately.

Reported by gitnexus-check on aea0ab06.

* chore: drop DECISIONS.md from the branch

Review feedback: the working log does not belong in the repository. The
reasoning it carried that is still load-bearing lives in the code comments
and in the PR description.

* perf(bench): gate value-ref resolution on scaling alone, not wall clock

A millisecond ceiling measures the runner. This repo has been bitten by that
twice already — bench/callable-value-flow's widening_overhead failed at 2.07
and 1.975 against a 1.9 budget on a shared runner while the code was correct,
both times on a sub-11ms measurement — so the arm is dropped rather than
loosened. `ms_budget` is gone from both arms and from `--check`; `min_ms`
and `us_per_site` are still reported, and nothing compares them to anything.

The remaining timing gate is the ratio, reshaped after
bench/parse-dispatch-rounds/baselines.json: `_what` / `_triage` notes, a
`_measured` block recording samples for context, and min-of-15 reps instead
of 7 (bench/import-target measured N=5 tripping its own budget about one run
in twenty, N=15 holding).

Budget 1.6 — 1.40x the measured maximum over 12 runs (0.907 .. 1.146), the
~1.5x headroom its siblings use on ratios.

Re-verified rather than re-quoted, and the previous note was wrong: replacing
QualifiedNameIndex.get with a full scan moves linear_factor from ~1.0 to 2.07,
not the ~3.7 recorded. Only 1 of the 17 value-ref sites per module reaches
that workspace-wide fallback. 1.6 sits clear of both ends. The note also
records the trap the first attempt fell into: patching gitnexus-shared/src
changes nothing, because the bench resolves the built package.

* fix(review): settle namespace precedence on the name, before the type gate

findNamespaceValueRefTarget's local lookup applied CALL_TARGET_TYPES while
selecting, so a target module declaring a NON-callable under the name answered
nothing and fell through to the published channel — binding a re-exported
callable under a name the module's own declaration owns. findExportedDef does
not do that: it returns any local def and lets its caller's type gate reject
it, so findExportedDefIncludingImportedNames never reaches the imported names
for a name the file declares. `x.f` and `x.f()` must not disagree about which
module owns f.

Not reachable through valid Zig today (a container cannot declare a name
twice, and Zig is the only provider setting namespaceExportsIncludeImportedNames),
which is why the regression test builds the indexes directly instead of adding
a fixture — there is no valid source to write. Its second case fails with the
guard removed.

Three smaller corrections from the same review:

- ZigBuildZonConfig.pathDeps promised the raw `.path` string; a nested package
  stores the normalized repo-relative value. The interface now documents both
  spellings and why either is safe to hand to normalizeZigDepPath. Comment
  only — no behaviour change.
- The 'single-package repo' compatibility test ran against zig-idioms, which
  declares libs/geo as a path dep and that directory has its own build.zig, so
  the walk finds two packages and the name was a claim rather than a check. It
  now runs against libs/geo itself and asserts the package list is exactly
  ['']; a second test pins the multi-package case, including that a file inside
  libs/geo is governed by that package and not by the root.
- The lower-bound header asserted 'some callers are not traced'.
  callableValueReferenceBoundaries hedges when its probe could not RUN and says
  whether the symbol is registered is unknown, so the header claimed an
  omission nothing established. It now says the count may be incomplete and
  names no cause; the per-cause bullets underneath carry that.

* feat(zig): bind a `@This()` alias to the container it names

`@This()` IS the enclosing container, and `const Self = @This();` is how most
Zig files say so. The container is minted under the FILE STEM and the alias
bound nothing class-like: a file-level alias mints no Const at all
(isZigFileThisAlias suppresses it so it cannot shadow the type for `w: *Widget`),
a container-level one mints a Variable every isClassLike walk steps over. So
`Self.member` resolved to nothing — not a wrong edge, no edge, and a caller
list missing it is the false confidence #3399 is about. This was the PR's
declared known limitation.

bindZigThisAliases binds the alias name to its container definition in
indexes.bindingAugmentations — the sanctioned post-finalize channel (I8),
consulted only AFTER a scope's own bindings, so it can never outrank a real
local declaration and can only answer where nothing answered before. Nothing
is replaced or removed. No query, capture or SCHEMA_BUMP change.

It runs inside populateZigRangeBindings, sharing that pass's parsed tree: a
pass of its own would re-parse every Zig file on a cold tree cache. Only
aliases declared directly in a container body or at file level are bound — the
same set collectZigThisAliases recognizes — because a function-local alias
belongs in that function's scope.

Measured cold-index before/after, same command, same build:

  tigerbeetle (246 .zig)  CALLS 17,066 -> 17,140 (+74), USES 437 -> 443,
                          MEMBER_OF 5,131 -> 5,143; every other edge type
                          unchanged, all 24 node-label counts identical
  mach (132 .zig)         CALLS 7,600 -> 7,615 (+15), MEMBER_OF +1, USES flat

The +74 matches a source census of 72 `Alias.member(` call sites in
tigerbeetle files whose alias differs from the stem. Spot-checked end to end:
src/aof.zig:636 writes `try AOF.init(io, output_path)` inside AOFType, and the
edge AOFType.merge -> AOFType.init#2 is present after and absent before. Node
totals move only through the derived layers (Community 524->527, Process
774->763) — no source symbol added or removed.

Scale of what was dropped: 73 of ghostty's 185 `@This()` files, 93 of
tigerbeetle's 94 and 8 of mach's 42 spell the alias differently from the stem,
carrying 302 `Alias.member` references between them, 96 of those calls.

Fixture zig-idioms/src/webapi/Widget.zig exercises both paths — a file-level
`Self` and a container-level `Me` in Metrics — through a call and a
registration. Five cases; three fail with the binding disabled, and the two
that do not are the controls: Element.zig's stem-spelled alias must keep
resolving byte-identically, and the alias name must not become resolvable from
another file.

* docs(review): stop claiming what the alias pass does not do

Two comments asserted things the adjacent code does not support.

The alias pass's call site said it ran before the payload walk "so a subject
spelled through the alias resolves here too". It does not: the payload walk
types subjects through findReceiverTypeBinding, which reads typeBindings plus
the namespace/workspace type channels and never bindingAugmentations, where
bindZigThisAliases writes. Measured on `for (Self.items) |it|` — `it` is bound
neither before nor after. The pass is in that loop for the tree and nothing
else, which is now what the comment says.

Nor is that a gap to close by also writing a typeBinding: no container name has
one, the file stem included, so a payload subject written `Type.member`
resolves for no spelling at all. Giving the alias an entry would make it behave
unlike the container it names. Recorded at the call site so the next reader
does not re-derive it.

The module-shadow test said Element.zig declares `const Gauge: u8 = 3;`. It
binds `Gauge` by IMPORT, and the distinction is the point of the fixture: a
local declaration would also claim the workspace qualified name `Gauge`,
leaving two candidates, and the fallback refuses to guess between two — so the
case the test exists for would never be reached. The comment now says which
binding it is and why the other shape would be self-defeating.

Comment-only: node and edge counts are byte-identical across a full re-index
(52,083 / 165,261 both sides).

* docs(zig): stop describing loadZigBuildConfig as root-only in the present tense

It takes a `packageDir` since this branch and reads
`path.join(repoRoot, packageDir, name)`; `loadZigWorkspaceIndex` is what
supplies it one, per package. Two comments still described the historical
root-only invocation as the function's current behaviour:

- the monorepo integration-test header, flagged by review;
- loadZigWorkspaceIndex's own docstring — the same sentence, in the function
  that calls it WITH a packageDir a few lines below, so fixing only the test
  copy would have left the worse of the two.

Both now attribute root-only reading to the CALL (no `packageDir`), which is
what the argument actually rests on: a monorepo has no root build files, so
that call answers null and every bare @import goes unresolved. The trailing
note about `loadImportConfigs` is reworded the same way — it calls the loader
for the root package alone; the loader is not root-bound.

Comment-only: node and edge counts byte-identical across a full re-index
(52,083 / 165,261 both sides), and detect-changes reports the two hunks
overlap no indexed symbol.

* fix(zig): a written namespace handle owns its own decline

`findNamespaceValueRefTarget` returning `undefined` conflated two different
answers: "no namespace import named this receiver" and "the module this file
named does not expose that member as a callable". Only the first should fall
through to the container channel. The second did too, and
`findClassBindingInScope`'s miss path answers from the WORKSPACE-wide
qualified-name index — so a same-named container in a file this one never
imported supplied the member the written module does not have.

The owner-shadow guard does not stop it, which is the part that is not obvious:
a plain `const utils = @import("utils.zig");` records a namespace IMPORT EDGE,
not a module-scope binding, so the guard finds nothing bound under the name and
reads the container as unshadowed. It catches `const Gauge = @import(x).MEMBER`
(a real binding) and misses the handle form.

Reproduced before fixing, not argued: `decoy.zig`'s `dom_utils` struct gains
`onlyOnDecoy`, a callable `dom_utils.zig` does not have, and `Element.zig`
registers `dom_utils.onlyOnDecoy`. That minted `JsApi -> onlyOnDecoy` — a
confident USES edge into a file `Element.zig` never imports, the wrong-edge
failure this PR exists to avoid, arriving through the container channel after
the namespace channel said no.

The channel now returns 'owned' for every outcome reached once the receiver is
established as this file's unshadowed namespace handle, and the caller declines
on it. A locally shadowed handle still falls through, because there the name
does not mean the import at that site and the container channel's guard is the
right decider.

Bench fingerprint and counts unchanged; no baseline edited.

* fix(zig): reject an absolute nested-package `.path` before rebasing it

The nested-package branch prefixes the package directory and THEN normalizes,
so an absolute `.path` stops looking absolute on the way: `packages/app/` plus
`/src` is `packages/app//src`, which is relative by inspection.
`normalizeZigDepPath` drops the empty segment and the dep lands on
`packages/app/src` — a directory that really exists — so a dependency pointing
outside the repository is fabricated into an in-repo resolution. The root
package was never affected: its prefix is empty, so the value reached the check
as written.

`isAbsoluteZigDepPath` is now asked of the value AS WRITTEN, before any
prefixing, and `normalizeZigDepPath` asks the same helper so the two cannot
drift. `..` is deliberately not handled there: `../core` escapes the package
but not the repo, and rebasing it is what the branch exists to do —
`normalizeZigDepPath` still rejects what escapes the ROOT afterwards.

Note for the reviewer: `path.posix.join(pkg, depPath)` does NOT fix this.
`join('packages/app/', '/dep')` is `packages/app/dep` — it strips the leading
slash too, producing the same fabricated path without rejecting anything.
Measured before writing the fix.

Regression test pins it through the real loader: `packages/app` declares
`.escapes = .{ .path = "/src" }`, and the test fails without the guard.

`impact normalizeZigDepPath` is HIGH (14 impacted, 4 direct, exact). The edit
is behaviour-preserving for that function — the same two conditions moved into
a named helper it calls — and its existing absolute-path suite, POSIX, Windows
drive and UNC spellings included, passes unchanged.

* docs(mcp): stop defining lower-bound as proof that callers were missed

The CLI header was corrected in round 8; the MCP tool contract still made the
assertion the CLI stopped making. `context` said lower-bound "means callers
exist that this view provably does not list" and `impact` said "the walk
provably missed callers" — but `callableValueReferenceBoundaries` also
publishes lower-bound when its probe could not RUN, and says in its own note
that whether the symbol is registered is unknown. A client following the
contract would read an unanswered question as evidence of an omission.

Both now define it as a FLOOR with two possible causes — the walk provably
missed callers, or a probe that would have established completeness could not
run — and point at `boundaries` for which. That keeps the common case exactly
as strong as it was; it only stops the contract asserting the one case it
cannot support. The `causes.callableValueReferences` bullet already documented
the probe-failure branch, so the headline was contradicting the body.

`local-backend.ts` quotes that definition to justify hedging; the quote is
updated to name which half it relies on.

---------

Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
2026-09-09 20:12:17 +00:00
EVA
25974caf05
fix(doctor): distinguish vector capability from repository index state (#3228)
Co-authored-by: Eva <eva@100yen.org>
Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
2026-09-09 13:06:41 +01:00
Ankit Verma
8ddab9aed5
feat(api): honor branch on POST /api/analyze (#3199)
* feat(api): honor branch on POST /api/analyze

The serve route accepted a `branch` field in the request body, returned
202 and reported the job `complete` — while indexing the remote's default
branch. Express drops unknown body fields, so the caller got no error and
no warning; the only way to notice was to inspect the checked-out clone.

Both ends of the plumbing already existed: CloneOrPullOptions.branch is
honored by cloneOrPull, and AnalyzeOptions.branch already drives
resolveBranchPlacement. Only the HTTP layer was missing, so this wires
`branch` from the route through cloneOrPull and LaunchOptions into the
worker's AnalyzeOptions. StartMessage.options is already typed as
AnalyzeOptions, so the IPC protocol is unchanged.

Validation reuses validateBranchName — the same function backing the
CLI's `--branch` — so both entry points accept exactly the same refs and
a malformed value is rejected with 400 before it can reach git.

Co-Authored-By: Claude Opus 5 <noreply@anthropic.com>

* fix(api): make branch part of job identity and complete ref validation

Addresses the review on #3199.

1. Job dedup ignored `branch`, so a request for branch B while branch A was
   in flight was answered with A's job and a 202. The caller would read that
   as "B is indexed" — the same silent wrong-branch outcome honoring `branch`
   was meant to remove. Branch is now part of the dedup identity; a
   different-branch request falls through to the single-slot guard and gets a
   truthful 409 instead.

2. validateBranchName implemented only a subset of git's ref rules, so
   `feature.lock`, `/feature`, `feature/`, `feature//next`, `@`, `@{` and
   dot-prefixed components passed validation and failed later in the git
   subprocess — a 202 plus a background failure rather than the advertised
   400. The remaining `git check-ref-format` rules are now enforced at the
   same chokepoint, which fixes the CLI and `.gitnexusrc` paths too. No
   branch git can create is affected.

3. The LaunchOptions doc claimed an explicit branch always pins
   `branches/<slug>/`. resolveBranchPlacement keeps the run on the flat slot
   when that slot has no owner, or when its owner is already this label.
   Comment and CHANGELOG corrected.

Co-Authored-By: Claude Opus 5 <noreply@anthropic.com>

* docs(server): describe cloneOrPull's branch path in its contract comment

The header comment predated `options.branch` and still said an existing
clone is only ever `git pull --ff-only`. The implementation has a second
path: with a branch it fetches that ref and runs
`checkout -B <branch> origin/<branch>`, so the requested branch — not the
one already checked out — ends up in the working tree.

The stale comment is actively misleading: a reviewer reading it concludes
that requesting a branch on an existing clone silently analyzes the
default branch, which is not what happens.

Co-Authored-By: Claude Opus 5 <noreply@anthropic.com>

* docs(server): scope the origin check to the existing-clone path

My previous comment said remote.origin is verified "in both cases", which
is wrong: assertRemoteMatchesRequestedUrl runs inside `if (exists)`, so a
fresh clone has no origin to check. Restructured around whether targetDir
exists, which is what actually selects the behavior.

Co-Authored-By: Claude Opus 5 <noreply@anthropic.com>

* test(server): cover branch job identity in JobManager's own suite

The branch dedup tests were sitting in analyze-api.test.ts, but they
exercise JobManager directly, so they belong beside the existing
"returns existing job for same repoUrl when active" case in
analyze-job.test.ts. Moved, and extended to cover the callers that omit
branch entirely — the upload route, the embed manager and the existing
tests — which compare undefined === undefined and are unaffected.

Also pins that branch survives the whole clone -> analyze -> terminal
update sequence, since it is now part of dedup identity and must not
drift mid-flight.

Co-Authored-By: Claude Opus 5 <noreply@anthropic.com>

* fix(api): give a pinned branch its own clone and settle the slot it wrote

Addresses the review on #3199.

Per-branch clone directories (review option 2). One checkout per repo made
`branch` one-shot: after any analyze the tree is dirty with generated
AGENTS.md / CLAUDE.md / .claude/, so a pinned request 202'd and then died on
cloneOrPull's porcelain refusal. Worse, a later request that OMITTED `branch`
pulled whatever branch the last pin left checked out and indexed it as the
default — silent wrong content, the same class as #3198 one request later.
A pinned run now clones into `<repo>__<branchSlug>`, so the two requests no
longer share a tree. The pinned clone registers under its directory name,
because both dirs share an origin and the inferred name would otherwise
collide; that name re-derives through getCloneDir, so DELETE still finds it.

Finalization gate. registerRepo always records the flat `.gitnexus`, but a
pinned run whose label differs from the flat slot's owner writes
`branches/<slug>/`. The gate probed the flat path regardless, so it never
settled, and the worker's normal exit 0 — sent ~500ms after `complete`, while
the job is deliberately still non-terminal — was classified as a crash and a
successful analysis was retried three times and failed. The gate now follows
the placement the worker reports (isPrimaryBranch, added to the IPC allowlist
under the rule that module already documents), and an exit after a terminal
IPC counts as winding down, not dying. Reported by the maintainer and
reproduced independently by @azizur100389.

analyzeCloneOptions extracted so the token/branch combination is asserted.
Inline, the branch-only case — a public URL with no token — was untested, and
dropping it there would silently reindex the default branch while every other
test stayed green.

CHANGELOG: the previous entry claimed the newly-400'd payloads "would have
failed at git", which is true of CLI --branch but wrong for HTTP, where they
succeeded on the default branch. Documented as an explicit behavior change.

Co-Authored-By: Claude Opus 5 <noreply@anthropic.com>

* fix(server): bound the branch clone-dir name to one path component

`validateBranchName` allows a 255-character ref and `branchSlug` appends a
dash plus 8 hash characters, so `<repo>__<slug>` reached 267 — past the
255-byte component limit on ext4/APFS/NTFS. The clone would then fail to
create its target directory, which the character-only regex could not catch.

Only the readable half is trimmed. The hash is a digest of the full ref and
is always kept, so two long branches sharing a prefix still resolve to
different directories rather than silently sharing an index. `branchSlug`
itself is untouched: the per-branch index slots already use those names on
disk, and shortening them there would orphan existing indexes.

Also corrects two comments: the forwarding test claimed a branch selector
always pins `branches/<slug>/` (it keeps the flat slot when that slot has no
owner or already owns the label), and the web client's `branch` doc said
omitting it means the remote default — true for a `url` request, but a `path`
request is never cloned and indexes whatever that tree has checked out.

Co-Authored-By: Claude Opus 5 <noreply@anthropic.com>

* fix(server): bound the branch clone-dir name and unblock same-branch re-index

Two defects found by testing this branch end to end, plus the review nits.

1. Path length. `validateBranchName` allows a 255-character ref and
   `branchSlug` appends a dash plus 8 hash characters, so `<repo>__<slug>`
   reached 267 — past the 255-byte component limit on ext4/APFS/NTFS, and the
   clone could not create its directory. Only the readable half is trimmed;
   the hash is a digest of the full ref and is always kept, so two long
   branches sharing a prefix still get separate directories. `branchSlug`
   itself is untouched — the per-branch index slots already use those names on
   disk and shortening them there would orphan existing indexes.

2. Same-branch re-index. Per-branch clone dirs stopped branches from
   contaminating each other, but a REPEAT pin still failed: analyze writes
   AGENTS.md / CLAUDE.md / .claude/ into the clone, so the second pinned run
   met its own dirt at the porcelain check and asked for
   `overwrite_local_changes`. When HEAD already matches the requested branch
   there is nothing to switch, so the run now takes the same `pull --ff-only`
   path an unpinned request takes — review option (1), alongside (2). The
   refusal is untouched where it matters: a real switch, or a detached HEAD,
   still goes through the checkout path and can still refuse.

Also: repositions getCloneDir's JSDoc, which an inserted constant had
orphaned; gates the pinned `registryName` on the same condition as the clone,
so supplying both `url` and `path` no longer renames the operator's local
repo; corrects a test comment that claimed a branch selector always pins
`branches/<slug>/`; and corrects the web client's `branch` doc, which said
omitting it means the remote default — true for `url`, but a `path` request
is never cloned.

Co-Authored-By: Claude Opus 5 <noreply@anthropic.com>

* docs: drop the CHANGELOG edits from this PR

Requested in review. Checking the history, no feat/fix PR here touches
gitnexus/CHANGELOG.md — the only recent commit on it is `chore: release
v1.6.11`, and CONTRIBUTING says release notes are generated from the merged
PR title via .github/release.yml. Hand-editing an [Unreleased] section from a
feature branch was my mistake, not the project's convention.

The behavior change it documented (branch: null / "" / non-string now 400
where they were previously dropped and the default branch indexed) is stated
in the PR description instead, which is what feeds the release notes.

Co-Authored-By: Claude Opus 5 <noreply@anthropic.com>

* docs(server): align the clone/pull contract with the same-branch fast path

Two comments I wrote went stale against my own later change.

`cloneOrPull`'s header still said an existing clone with `options.branch`
always fetches and runs `checkout -B`. Since the same-branch fast path landed
that is only true when the branch actually differs; when it is already checked
out the run takes `pull --ff-only` and no dirty-tree check applies. The header
now splits on whether the branch differs, which is what the code branches on.

The web client's `branch` doc said omitting it on a `url` request clones the
remote default. That holds only when there is no clone yet — an existing
unpinned clone is pulled on whatever branch it already has checked out.

Comments only; no behavior change.

Co-Authored-By: Claude Opus 5 <noreply@anthropic.com>

* Address PR review feedback (#3199)

Pin a same-branch re-index to `git pull --ff-only origin <branch>` so the job cannot follow an unverified `branch.<name>.merge` while still skipping the dirty-tree refuse.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(server): close the #3199 holes on pinned analyze re-index

Same-ref updates were a raw pull dest (force-fetch via +) or a shallow ff-merge that could not move, and a tag pin compared the tag-object SHA so re-index refused a dirty tree. Fetch the mapped remote-tracking ref, stay put on a peeled SHA match, restore only GitNexus overlays, skip the 60s settle on alreadyUpToDate, and keep branch validation in core so the HTTP route does not import the CLI.

Co-authored-by: Cursor <cursoragent@cursor.com>

* chore(autofix): apply prettier + eslint fixes via /autofix command

---------

Co-authored-by: Claude Opus 5 <noreply@anthropic.com>
Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
2026-09-08 15:15:45 +01:00
Gergő Magyar
c5c4fbe43c
fix(zig): vendor tree-sitter-zig so npm i -g no longer warns on peers (#3180)
* fix(zig): vendor tree-sitter-zig so npm i -g no longer warns on peers

Published overrides do not apply to dependents, so the Zig optionalDependency
kept warning that tree-sitter@0.21.1 does not satisfy peerOptional ^0.22.1.
Load it from vendor/ like Dart/Kotlin/Swift instead.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(ci): add zig parse snippet to prebuild validate

The six zig prebuild jobs failed at "Validate the .node loads and parses"
because snippets[GRAMMAR] was undefined and tree-sitter threw
"Input must be a function".

Co-authored-by: Cursor <cursoragent@cursor.com>

* chore: drop Unreleased changelog note from the Zig vendor PR

CHANGELOG.md is owned by the release process, not individual PRs.

Co-authored-by: Cursor <cursoragent@cursor.com>

* chore(vendor): rebuild native prebuilds (tree-sitter-zig)

Built by https://github.com/abhigyanpatwari/GitNexus/actions/runs/33949409205

* chore(vendor): rebuild native prebuilds (tree-sitter-zig)

Built by https://github.com/abhigyanpatwari/GitNexus/actions/runs/33949616521

* chore(vendor): rebuild native prebuilds (tree-sitter-zig)

Built by https://github.com/abhigyanpatwari/GitNexus/actions/runs/33949829377

* chore(vendor): rebuild native prebuilds (tree-sitter-zig)

Built by https://github.com/abhigyanpatwari/GitNexus/actions/runs/33950025077

* chore(vendor): rebuild native prebuilds (tree-sitter-zig)

Built by https://github.com/abhigyanpatwari/GitNexus/actions/runs/33950220655

* chore(vendor): rebuild native prebuilds (tree-sitter-zig)

Built by https://github.com/abhigyanpatwari/GitNexus/actions/runs/33950400275

* chore(vendor): rebuild native prebuilds (tree-sitter-zig)

Built by https://github.com/abhigyanpatwari/GitNexus/actions/runs/33950607933

* chore(vendor): rebuild native prebuilds (tree-sitter-zig)

Built by https://github.com/abhigyanpatwari/GitNexus/actions/runs/33950882912

* chore(vendor): rebuild native prebuilds (tree-sitter-zig)

Built by https://github.com/abhigyanpatwari/GitNexus/actions/runs/33951170483

* chore(vendor): rebuild native prebuilds (tree-sitter-zig)

Built by https://github.com/abhigyanpatwari/GitNexus/actions/runs/33951386477

* chore(vendor): rebuild native prebuilds (tree-sitter-zig)

Built by https://github.com/abhigyanpatwari/GitNexus/actions/runs/33951624305

* chore(vendor): rebuild native prebuilds (tree-sitter-zig)

Built by https://github.com/abhigyanpatwari/GitNexus/actions/runs/33951813452

* chore(vendor): rebuild native prebuilds (tree-sitter-zig)

Built by https://github.com/abhigyanpatwari/GitNexus/actions/runs/33951998309

* chore(vendor): rebuild native prebuilds (tree-sitter-zig)

Built by https://github.com/abhigyanpatwari/GitNexus/actions/runs/33952225172

* chore(vendor): rebuild native prebuilds (tree-sitter-zig)

Built by https://github.com/abhigyanpatwari/GitNexus/actions/runs/33952524393

* fix(ci): stop native prebuild rebuild loops

PR path filters and source checks see the cumulative diff, so generated binaries kept rebuilding the original source change. Skip output-only synchronize events using their exact before/head range, failing closed when Git cannot compare it. Exercise the workflow against real commit histories, including multi-commit source pushes and merge-ref drift.

* chore(vendor): rebuild native prebuilds (tree-sitter-zig)

Built by https://github.com/abhigyanpatwari/GitNexus/actions/runs/33953226606

* fix: address Zig PR review feedback (#3180)

Check for the vendored package without loading its native binding so a
broken installed Zig grammar fails the parsing test instead of skipping.
Match the optional child descriptor in the Zig metadata declaration and
include Zig in the two optional/vendored grammar comments.

Validation: 159 targeted tests, TypeScript, metadata type fixture, and
formatting passed. Injected native-load failure now fails instead of
skipping; explicit Zig opt-out still skips.

* chore(vendor): rebuild native prebuilds (tree-sitter-zig)

Built by https://github.com/abhigyanpatwari/GitNexus/actions/runs/33956342308

---------

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
Co-authored-by: gitnexus-release-bot[bot] <gitnexus-release-bot[bot]@users.noreply.github.com>
2026-09-05 10:35:33 +01:00
Gergő Magyar
c0c3fa18a9
chore: release v1.6.11 (#3177)
* chore: release v1.6.11

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(test): read /api/info version from package.json

server-info unit tests hardcoded 1.6.10 while buildServerInfo reads
package.json, so the 1.6.11 bump failed ubuntu coverage 3/3.

Co-authored-by: Cursor <cursoragent@cursor.com>

* refactor: read the published version from one helper

Release bumps kept breaking tests that each re-required package.json.
packageVersion() is now the single read for CLI, MCP, serve, and those tests.

Co-authored-by: Cursor <cursoragent@cursor.com>

---------

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
2026-09-04 20:02:37 +01:00
Gergő Magyar
9bf307123e
feat: notify users when a newer gitnexus version is available (#3175)
* feat(core): add cache-first npm update-check service

Shared fail-open checker: validated 24h cache under GITNEXUS_HOME,
acquireFileLock-guarded refresh, monotonic publication, hardened
registry fetch (no credentials, private-address redirects refused,
body-capped), strict x.y.z comparator, install-eligibility
classification, and an unref'd refresh scheduler for long-lived
processes. Extracts getGlobalDir into storage/global-dir.ts with a
repo-manager re-export (no caller changes).

Co-authored-by: Cursor <cursoragent@cursor.com>

* feat(cli): notify on available updates via stderr and doctor

One i18n'd stderr line on interactive invocations when the validated
cache holds a newer version (TTY-gated, CI/opt-out/eligibility-gated,
hook and help/version command identities excluded). Stale cache spawns
a detached hidden __update-check refresh child so command exit latency
is unchanged. doctor prints the cached latest version when known.
Dockerfile.cli sets GITNEXUS_NO_UPDATE_NOTIFIER=1.

Co-authored-by: Cursor <cursoragent@cursor.com>

* feat(mcp): emit one stderr update notice per process per version

Process-scoped adapter in mcpCommand (stdio and --http), dynamically
imported after the stdout sentinel, started only after connect, fully
catch-isolated. Arms the shared refresh scheduler with cleanup on
process exit. Protocol payloads stay free of update state (R15).

Co-authored-by: Cursor <cursoragent@cursor.com>

* feat(serve): expose update state on /api/info

Serve-scoped controller owns an in-memory update snapshot: one
staleness evaluation after listen, then the shared unref'd scheduler,
stopped on close/shutdown. /api/info reads only the snapshot and gains
optional latestVersion/updateAvailable fields for eligible installs;
the existing three fields are byte-compatible.

Co-authored-by: Cursor <cursoragent@cursor.com>

* feat(web): dismissible update-available banner from /api/info

Fetches server info after backend connect and on reconnect, renders a
fixed banner in the exploring view only when updateAvailable is true
and the version is undismissed, hides while the reconnect banner is
active, and fails open on fetch errors. role=status + aria-live with a
keyboard-focusable dismiss; dismissal persists per version in
localStorage. Copy in en/zh-CN common.json with version interpolation.

Co-authored-by: Cursor <cursoragent@cursor.com>

* docs(cli): document update notifications and opt-outs

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(review): apply review findings and simplify pass

Review: gate the detached refresh spawn on a live lock-owner probe so
parallel CLI invocations coalesce to one refresh child (validated P2,
three-reviewer agreement); poll /api/info on a slow cadence while
exploring so post-load server-side discoveries surface (validated P1);
add a monotonic sequence guard so overlapping server-info fetches
commit in order.

Simplify (behavior-preserving): shared truthy-env/opt-out/freshness
helpers in update-cache.ts, shared cachedUpdateNoticeLine for CLI and
doctor, extracted install-eligibility core with per-process memo,
memoized registry parsing, single evaluation per scheduler cycle,
cache-only startup evaluate in serve, flattened MCP exit handler,
shared bottom-banner shell, storage keys in ui-constants.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(update-notifier): address residual review tickets on this PR

Stop the lock-busy 1ms scheduler spin, replace clock-skewed cache
entries, move the outbound URL guard into core, and extract the serve
update controller. Pin the startup/guard/single-flight/MCP/CLI contracts
those tickets called out.

Fixes #3167 #3168 #3169 #3170 #3171 #3172 #3173 #3174

Co-authored-by: Cursor <cursoragent@cursor.com>

* Address PR review feedback (#3175)

Fetch the npm /latest document instead of the full packument so the 64KiB cap can succeed, and treat reused lock PIDs as stale so refresh is not suppressed.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Address PR review feedback (#3175)

Register the CLI spawn suite on the OS matrix, pin MCP opt-out env, and compare versions without IEEE-754 rounding.

Co-authored-by: Cursor <cursoragent@cursor.com>

* feat(cli): add gitnexus update install and versioned command banners

Give an explicit Claude/Codex-style upgrade (`npm i -g gitnexus@version`) and print `GitNexus <Name> (version)` on every command so the running build is obvious without silent self-update.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Address PR review feedback (#3175)

- Document the pinned install as npm i -g gitnexus@<x.y.z>, not a copyable @version tag
- Wait for wall-clock-future cache repair to publish before asserting
- Restore the stdout spy if the TTY notice assertions fail

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(update-notifier): keep last known latestVersion on a failed refresh

A later offline check was wiping the pin and hiding a known update for 24h.
gitnexus update still treats a failed live fetch as checkFailed.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Address PR review feedback (#3175)

- Word update.current so a newer-than-latest install is not called the latest stable version.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(ci): hide the detached update-check spawn on Windows

The refresh child was spawned without windowsHide, so Windows CI could stall
before writing the cache and then fail cleanup with EBUSY.

Co-authored-by: Cursor <cursoragent@cursor.com>

---------

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
2026-09-04 18:50:03 +01:00
Parafee41
47c2799ba7
fix(analyze): add cold parser rebuild option (#3153) 2026-09-04 05:14:00 +01:00
Navid EMAD
932d937085
feat: add Zig language support (#1432)
* feat: add Zig language support

Adds a Zig LanguageProvider grounded in @tree-sitter-grammars/tree-sitter-zig 1.1.2.
The grammar's published peerOptional `tree-sitter@^0.22.1` is suppressed via an
npm `overrides` entry that aliases the peer to the bundled `tree-sitter@0.21.x`;
load-time smoke testing confirmed ABI compatibility.

v1 capabilities:
  - .zig file detection + Prism syntax mapping
  - Top-level + nested function_declaration as Function/Method
  - struct/enum/union (anonymous in the grammar — owner name resolved from the
    enclosing variable_declaration in class/field/method extractors)
  - container_field as struct/union fields and enum variants
  - top-level const/var as Variable nodes
  - free + member call_expression as @call edges
  - @import("./foo.zig") local-file resolution; std and external packages
    return empty (no ghost edges)
  - pub keyword detection for export checking
  - no heritage hooks (Zig has no inheritance; queries never emit @heritage.*)

Generic extractor changes (backward-compatible):
  - field-extractors/generic.ts and method-extractors/generic.ts: empty
    `bodyNodeTypes` falls back to the type declaration node itself as its own
    body container — needed because Zig's struct_declaration directly contains
    its container_field children. (The `extractOwnerName` hook this commit
    originally introduced now exists upstream; Zig just configures it.)

Out of scope (deferred):
  - usingnamespace, build.zig.zon package graph, comptime/anytype
  - scope-resolution hooks (emitScopeCaptures, interpretImport, …): Zig is
    classified `experimental` and uses the generic fallback resolution path
  - cross-package imports (std, deps)

Tests:
  - new fixture test/fixtures/sample-code/simple.zig
  - Zig describe block in tree-sitter-languages integration test
  - simple.zig added to parsing.test.ts fixture-existence list
  - Zig added to ingestion-utils detection unit test
  - Zig smoke case in parser-loader-abi.test.ts
  - Zig grammar registered in the grammar-literal validation gate

* feat(zig): integrate build.zig.zon resolution + Union label from PR 1096

Ports the additive pieces of grgisme's standalone Zig provider PR
(https://github.com/abhigyanpatwari/GitNexus/pull/1096) onto the rebased
provider:

  - build.zig.zon `.path` dependency resolution for bare-name
    @import("pkg") (parseZigBuildZon / loadZigBuildZon in
    language-config.ts, resolveZigImportInternal in import-resolvers/zig.ts,
    wired through ImportConfigs.zigBuildZon). `.url` deps and
    repo-escaping paths return null cleanly. 13 unit tests.
  - `union(enum)` containers now produce `Union` nodes (not Struct):
    'Union' added to ClassLikeNodeLabel + CLASS_LIKE_LABELS, the Zig query
    tags @definition.union, CONTAINER_TYPE_TO_LABEL maps union_declaration
    to 'Union'. The label was already plumbed graph-wide on main.
  - /^build$/ entry-point pattern (build.zig).
  - zig-basic lang-resolution fixture + resolvers integration test.

Adapted to current main while porting:

  - labelOverride relabels container-nested fns Function → Method
    (mirrors isKotlinClassMethod); the structure phase no longer derives
    Method from the legacy method-extraction path for plain
    @definition.function captures.
  - IMPORTS/CALLS edges require scope-resolution hooks
    (emitScopeCaptures / interpretImport) since the legacy DAG removal;
    Zig does not implement them yet, so the integration test documents
    that with a skipped import-edge case. The resolver itself is wired
    into the resolver factory and becomes live when the hooks land.

Not ported: named-bindings extractor (the legacy namedBindingExtractor
API no longer exists) and the bespoke field extractor (the generic
factory's extractOwnerName / empty-bodyNodeTypes hooks cover Zig).

Co-authored-by: Garrett Griffin-Morales <grgisme@gmail.com>

* feat(zig): scope-resolution hooks — IMPORTS and CALLS edges (Ring 3)

Implements the registry-primary scope-resolution path for Zig, the
prerequisite for cross-file edges since the legacy DAG removal. Adds the
standard per-language stack under languages/zig/:

  - query.ts: scope query (containers as Class scopes, blocks, functions),
    declarations (container anchors placed on the container node itself so
    the def lands in its own Class scope and the name binding auto-hoists
    to the parent — populateClassOwnedMembers needs the class-like def
    among the class scope's ownedDefs), @import statements (#eq?-gated
    builtin), parameter/constructor type bindings, and call/constructor
    reference sites. The grammar is required lazily (optionalDependency).
  - captures.ts: emitZigScopeCaptures — groups query matches, drops the
    plain-variable group for container/import bindings (their dedicated
    rules bind the name), and relabels container-nested fns
    @declaration.function → @declaration.method (labelOverride parity).
  - interpret.ts: namespace-kind imports (const x = @import("…")) and
    type bindings — self-parameter convention marks the receiver, Zig
    sigils (*, ?, [], error unions, const) stripped from type names while
    dotted qualifiers (mod.T) are preserved for Case-3 namespace-prefix
    receiver dispatch.
  - simple-hooks.ts: parameter bindings stay function-local (Go
    rationale), local-over-import merge precedence, bounds-check arity
    (always 'unknown' today — no synthesized arity metadata).
  - scope-resolver.ts: emit-side wiring; build.zig.zon threads through
    loadResolutionConfig into the same resolveZigImportInternal the legacy
    resolver config wraps. fieldFallbackOnMethodLookup off (statically
    typed). Registered in SCOPE_RESOLVERS.

The resolvers integration test un-skips the import-edge case and gains
CALLS assertions: free call (main → helper) and receiver-bound method
dispatch through a namespace-qualified constructor
(var p = pioneer.Pioneer{…}; p.tick() → main → tick).

* fix(zig): Union is class-like + missing-grammar warning (review pass)

Self-review findings on the Zig branch:

  - scope/walkers.ts `isClassLike` and finalize-algorithm's
    CALLABLE_OR_TYPE_LIKE did not include 'Union': a `union(enum)`
    container's methods got no ownerId from populateClassOwnedMembers, so
    method dispatch on union receivers silently dropped. Widened both
    sets; the zig-basic fixture gains a Tag method + a CALLS assertion
    (main → isEnergy) that fails without the widening (verified by
    reverting).
  - optional-grammars.ts now lists tree-sitter-zig with an npm `probe`
    (it is an optionalDependency, not vendored): users with .zig files
    and no prebuild get the standard one-line stderr warning instead of
    a silently degraded index.
  - Deduplicated the container-method predicate: `isZigContainerMethod`
    + ZIG_CONTAINER_TYPES now live once in languages/zig/captures.ts and
    feed both the provider labelOverride and the scope-capture relabel.
  - README language matrices: Zig row now claims Type Annotations,
    Constructor Inference, and Config (build.zig.zon) — all true since
    the scope-resolution hooks landed.

* fix(zig): anchor @declaration.variable to the binding identifier

`(variable_declaration (identifier) @declaration.name)` matched EVERY
identifier child of the node, so `const first = target;` also declared a
phantom local named `target` in the enclosing block. That phantom shadowed
the real function for later references (and starved callable-value-flow
seeds of a target). The `.` anchor pins the pattern to the first named
child — the bound name.

Regression test in resolvers/zig.test.ts pins the capture set.

* feat(zig): callable-value-flow captures + main's per-language conformance gates

Post-rebase catch-up: since this branch forked, main added three "every
registered language must appear here" tests. Each needs a Zig entry:

- callable-value-flow (#2522): Zig now emits `@callable-flow.*` facts via
  `synthesizeCallableFlowCaptures` (ZIG_CALLABLE_CAPTURE_OPTIONS in
  zig/captures.ts). tree-sitter-zig's `call_expression` carries arguments
  as direct children with no wrapper node, which the shared helper could
  not decompose, so this adds a language-neutral `extractCallArguments`
  hook (mirror of `extractFunctionParameters`; `undefined` = shared path).
  Zig joins the provider matrix as 'matrix' with a real assign→copy→
  argument→invoke case.
- external-import-conformance (#2953): `@import("std")` beside a decoy
  `src/std.zig` resolves to nothing; the decoy stays reachable via the
  relative spelling. Zig holds the property (no suffix fallback), so it is
  a case, not a KNOWN_GAPS entry.
- import-target-index-reuse contract (#2909): membership-probe-only
  fixture (minimumScans: 0, same shape as Rust).

* fix(zig): address gitnexus-check review findings

One commit per the bot's list so each item is easy to check off:

- parser-loader: Zig row gains `userSkippable: true`, so
  `GITNEXUS_SKIP_OPTIONAL_GRAMMARS` (=1 or a list naming `zig`) disables it
  at analyze time like swift/dart/kotlin — as `optional-grammars.ts` already
  documented. Covered in parser-loader-skip-optional.test.ts.
- export-detection: `zigExportChecker` stops at the first declaration it
  reaches. A non-`pub` fn inside `pub const T = struct {…}` was reported
  exported because the walk continued up to the wrapper.
- import-resolvers/zig: a `.path = "."` dep normalizes to '' and no longer
  grows a leading slash (`/src/main.zig` could never match).
- language-config: build.zig.zon parsing strips `//` comments string-aware
  (a `//` inside `.url = "https://…"` survives) and matches braces while
  skipping string literals, so a commented-out `.path` cannot declare a dep
  and a `}` in a comment/string cannot truncate the block.
- method-extractors/configs/zig: the leading `self` receiver is excluded
  from `parameters` (Rust parity). Fixing that exposed a worse bug: the
  `parameters` node is a plain child of `function_declaration`, not a
  `parameters:` field, so `childForFieldName('parameters')` was always null
  and every Zig method had no parameters, no receiver and `isStatic: true`.
  One `zigParameterList` helper now feeds all three readers.
- variable-extractors/configs/zig: container (`struct`/`enum`/`union`) and
  `@import` bindings are skipped via the same predicate the scope captures
  use (`isZigContainerOrImportBinding`), instead of the comment merely
  claiming they were.
- tree-sitter-languages.test.ts: the "missing grammar" case now forces the
  absent-binding path through the loader's runtime opt-out on a fresh module
  instead of passing vacuously when the package is installed.

New: test/unit/zig-extractors.test.ts (exports, receiver/parameters,
variable guard); zig-import-resolver.test.ts gains the `.` dep, comment and
brace cases.

The `createFieldExtractor` heads-up needs no change: the added branch is
unreachable for every existing config (none has empty `bodyNodeTypes`).

* fix(zig): address second gitnexus-check review pass

- import-resolvers/zig: `..` above the repository root now returns null
  instead of aliasing a same-named root file (`../bar.zig` from `main.zig`
  is not `bar.zig`); the stale "extension is stripped and re-added" comment
  is corrected to what the code does.
- variable-extractors/configs/zig `extractType`: read the `type:` field only.
  The positional fallback returned the INITIALIZER of `const f = target;`
  as its type and gave up on compound annotations (`*Foo`, `?[]const u8`).
  The comment claiming 1.1.2 has no `type` field on variable_declaration
  was wrong (verified by AST dump) — and it is what led the review to
  suspect the callable-flow `extractAssignment` callback, which was
  already correct for `extern var f: T;`.
- receiver detection: only a FIRST parameter named `self` is the receiver.
  `emitZigScopeCaptures` tags first-position parameters
  (`@type-binding.first-parameter`), `interpretZigTypeBinding` requires the
  tag as well as the name, so `zigReceiverBinding` no longer turns
  `fn f(a: u32, self: T)` into an instance method.
- resolvers/zig.test.ts: both suites `describe.skipIf(!zigAvailable)`
  (Swift/Dart pattern) — the grammar is an optionalDependency.
- tree-sitter-languages.test.ts: the Zig parsing case gates on
  `isLanguageAvailable` instead of a catch-all `return`, so an installed
  grammar that fails to load fails the test; comment no longer calls Dart
  and Swift npm optionalDependencies (they are vendored).
- test/helpers/literal-collectors: `DIR_LANG` gains `zig`, so literals under
  `languages/zig/**` are validated against the Zig grammar alone rather than
  against every grammar.
- walkers.ts `isShapeLike` doc: Union IS included (via isClassLike, wired by
  Zig's union member container); Typedef remains the only deferred one.
- language-config `ZigBuildZonConfig.pathDeps` doc: values are the raw
  `.path` strings; the resolver normalizes.

Tests: zig-import-resolver (+1), zig-extractors (+3).

* fix(zig): address third gitnexus-check review pass

- language-config `parseZigBuildZon`: the `.dependencies = .{` header and
  the per-entry `.<name> = .{` headers are matched only OUTSIDE string
  literals (per-offset string mask + `matchZonHeader`). A `.name` or
  `.description` value spelling `.dependencies = .{ .fake = .{ .path = … } }`
  used to be taken as the block and returned the fake dep instead of the
  real top-level one.
- import-resolvers/zig: an absolute import (`@import("/foo.zig")`) returns
  null. The path walker skipped every empty component, so the leading `/`
  vanished and `/foo.zig` resolved as importer-relative `src/foo.zig` — an
  in-repo edge for an import Zig rejects as outside the module path.
- tree-sitter-languages.test.ts: the Zig parsing case gates on the PACKAGE
  being installed (`createRequire().resolve`, minus a deliberate
  `GITNEXUS_SKIP_OPTIONAL_GRAMMARS` opt-out), not on `isLanguageAvailable`,
  which is false for absent AND for installed-but-broken bindings — so a
  load failure (ABI mismatch, bad export) now fails the test instead of
  skipping it, as the comment already claimed.
- walkers.ts `isShapeLike` doc: `Union` sits in `isClassLike` because that
  is the label set the ownership walkers consult, not because unions
  inherit — Zig has no inheritance and no heritage hooks. The previous
  wording ("inheritance-capable owner") said otherwise.
- Not re-fixed (already addressed in the second pass, findings carried
  over): "receiver = any parameter named self" — `interpretZigTypeBinding`
  only sources a first-position parameter as `self`; `zigReceiverBinding`'s
  doc now states that invariant. "`DIR_LANG` has no zig entry" — it does.
  Extended one level out: `BASENAME_LANGS` (`zig.ts`) and `PREFIX_LANGS`
  (`ZIG_`) map to the Zig grammar too, so extractor configs and the
  export-detection set are validated against Zig alone. That immediately
  caught a dead `childForFieldName('parameters')` in
  method-extractors/configs/zig `zigParameterList` (there is no such field;
  the named-child lookup was already the one doing the work) — removed.

Tests: zig-import-resolver (+2: absolute path, header inside a string);
both fail on the previous code.

* fix(zig): address fourth gitnexus-check review pass

- language-config: `parseZigBuildZon` only accepts a `.path` that is a
  DIRECT field of a dependency entry. Nested blocks inside the entry body
  are blanked (string-aware, offsets preserved) before the `.path` regex
  runs, and a match starting inside a string literal is rejected, so
  `.dep = .{ .url = "…", .meta = .{ .path = "x" } }` no longer becomes a
  path dep. Regression test in zig-import-resolver.test.ts (fails on the
  previous code).
- tree-sitter-languages test: the "grammar is absent" case now drives the
  loader's real `source.load()` catch branch — `node:module` is stood in
  with a `createRequire` whose require throws MODULE_NOT_FOUND for
  `@tree-sitter-grammars/tree-sitter-zig` and delegates everything else —
  instead of the `GITNEXUS_SKIP_OPTIONAL_GRAMMARS` opt-out, which has its
  own test. It also asserts the opt-out flag is NOT set and that other
  grammars still load (non-fatal optional failure).

Not re-fixed:
- "Return type is read from the wrong tree-sitter field": tree-sitter-zig
  1.1.2 has NO `return_type` field on function_declaration — the type after
  `)` is the `type` field (AST dump: `builtin_type "i32" field=type`; the
  proposed `childForFieldName('return_type')` is null for every function).
  A pin test in zig-extractors.test.ts asserts both the grammar fact and
  that `returnType` is extracted (`void`, `!*Counter`).
- "`DIR_LANG` has no zig entry": it does (added in the first pass and
  answered again in the third); the finding is carried over unchanged.

* fix(zig): address fifth gitnexus-check review pass

- tree-sitter-languages test: the Zig "functions, structs, enums, and
  imports" case now asserts the `import.source` capture for
  `const std = @import("std");` (the fixture's only import), so a query
  change that drops Zig import matching fails it instead of passing
  unchanged.

Not re-fixed:
- "Return type is read from the wrong tree-sitter field": carried over from
  the fourth pass unchanged. tree-sitter-zig 1.1.2 has no `return_type`
  field on function_declaration; the return type IS the `type` field, and
  the pin test added in the fourth-pass commit
  (zig-extractors.test.ts, `childForFieldName('return_type')` is null,
  `returnType` = `void` / `!*Counter`) proves it.
- "`DIR_LANG` has no zig entry": carried over unchanged for the third time;
  the entry exists since the second-pass commit.

* feat(zig): export fn visibility, opaque containers, named test blocks, member ownership

Ports the parts of upstream PR #305 (closed, unmerged) that our Zig
provider lacked, plus two gaps found while porting.

- `export fn` / `export var` (C-ABI linkage, never `pub`) are exported;
  the pub/export predicate is now shared by the export checker and the
  method/variable extractors' visibility (`hasZigVisibilityKeyword`).
- `const H = opaque { … }` is a Struct-labelled container (it may own
  methods, never fields) in both the structure queries and the scope
  query; ZIG_CONTAINER_TYPES is the single source for the extractor
  configs.
- `test "name" { … }` blocks are Function nodes named by the string
  node WITH quotes, so `test "add"` beside `fn add` cannot merge onto
  Function:<file>:add; `test_declaration` joins FUNCTION_NODE_TYPES and
  the Zig method config names it in the enclosing-function walk, so
  calls inside a test attribute to the test. Anonymous `test {}` and
  decl-tests `test add {}` are scopes without a node (an empty-name hook
  result stops the walk instead of falling through to the identifier of
  the function under test).
- Empty container bodies (`struct {}`, `opaque {}`) no longer mint a
  nameless Property: tree-sitter-zig 1.1.2 recovers them as a
  container_field with a MISSING identifier; #not-eq? guards in both
  queries and the field extractor drop it.
- Owner walk (`findEnclosingClassInfo`): an anonymous container bound
  by the enclosing `variable_declaration` takes the binding identifier,
  same shape as the Go `type_spec` branch. Before this NO Zig member
  had an owner — zero HAS_METHOD / HAS_PROPERTY edges for Zig.

Not ported from #305, deliberately: `builtInNames` (a bare-name call-site
drop filter; `alloc`/`free`/`append`/`print` are the most common user
method names in Zig and `std.*` receivers are already external via the
import binding), `usingnamespace` (removed in Zig 0.15), `@cImport`,
`build.zig` ignore, and the web-app changes.

* test(zig): absent-grammar case owns GITNEXUS_SKIP_OPTIONAL_GRAMMARS

The loader parses the opt-out variable lazily once per module copy, so
under `GITNEXUS_SKIP_OPTIONAL_GRAMMARS=zig` (or `all`) — a supported way
to run — the fresh loader took the opt-out branch and the "not the
opt-out path" assertion failed before the absent-binding path ran.

Clear the variable for the fresh module and restore it in `finally`,
instead of returning early: the branch stays exercised in every
environment. Verified: fails on the previous code under `=zig`, passes
with and without the variable now.

* fix(zig): declare the Union relation pairs — analyze aborted on any union

`gitnexus analyze` exited 1 on every Zig repository that declares a
`union` (including the zig-basic fixture itself): the member-ownership
commit made `union_declaration` a MEMBER_OWNER, so HAS_PROPERTY /
HAS_METHOD edges are emitted FROM a Union node, but `Union` was not in
LINKABLE_LABELS, so the schema's scope-bridge cross product never
generated a `FROM Union` pair and LadybugDB rejected the edge
(`labelPair: "Union|Property"`). Resolver tests stayed green because
they never write to the DB.

- `Union` joins LINKABLE_LABELS (also bridges `Tag{…}` constructor
  references); the three hand-written `→ Union` target pairs move to the
  generated half, per the STRUCTURAL_PAIR_DDL rule.
- structural-pair-coverage gains an optional-grammar corpus with
  zig-basic (`Union|Property`, `Union|Method` sentinels), skipped when
  the grammar is absent.
- Rust `union_item` note updated: the three gates it cited are widened.

Note for reviewers: the DDL fingerprint changes (#2808), so existing
indexes are rebuilt on next analyze.

* feat(zig): resolve path deps through the dep's build.zig and src/root.zig

The bare-name resolver only knew `src/<name>.zig` and `src/main.zig`.
`zig init` has written `src/root.zig` for libraries since 0.12, so the
default library layout never resolved. Now: the root the dep's own
build.zig declares (`b.addModule("<name>", .{ .root_source_file =
b.path("…") })`, name-matched module first), then src/root.zig,
src/<name>.zig, src/main.zig. `normalizeZigDepPath` is shared by the
loader and the resolver.

* feat(zig): Const/Variable defs, member imports, receiver typing, generic type constructors

Coverage gaps found by indexing idiomatic Zig against the branch:

- Const / Variable nodes: ZIG_QUERIES had no @definition.const /
  @definition.variable, so `pub const VERSION`, error sets and type
  aliases were absent and zigVariableConfig never ran. Rules are gated on
  the literal `const` / `var` keyword — tree-sitter-zig 1.1.2 parses
  statement assignments (`x = 5;`, `x += 1;`, `_ = expr;`) as keyword-
  less `variable_declaration`s, and the scope query minted a phantom
  local per assignment and one `_` per discard. Container and @import
  bindings are skipped via `shouldSkipDefinitionCapture`.
- Imports: `const X = @import("x.zig").X` (named / alias), `const X =
  ns.X` where `ns` is an @import binding of the file (promoted to a
  named import), and `pub usingnamespace @import(...)` (wildcard, with
  `expandsWildcardTo`). All three lost the file-level IMPORTS edge.
- Receiver typing: `var x: T = undefined` / decl literals `const x: T =
  .init()` (annotation), `var c = T.init()` / `mod.T.init()` (call
  return), `List(u8){}` (instantiation literal); `normalizeZigTypeName`
  drops the comptime argument list.
- Generic type constructors `fn List(comptime T: type) type { return
  struct {…}; }`: the returned container is a Struct/Union/Enum named
  after the fn, owns its members (HAS_METHOD / HAS_PROPERTY), binds in
  the module scope beside the Function def, and is emitted ahead of it
  so a named import binds the type.
- `export` vs `pub`: `visibility` is now `pub`-only (Zig-module fact);
  `isExported` keeps `pub|export` (visible outside the unit, as C's
  external linkage). `export fn` without `pub` is not reachable from
  other Zig files.
- Extractor configs share `zigContainerName`; ast-helpers' owner walk
  learns the type-constructor shape.

Tests: zig-idioms fixture (10 resolver cases), extractor/interpret unit
cases for each rule.

* fix(zig): address sixth gitnexus-check review pass

- Windows absolute `.path` deps (`C:\x`, `C:/x`) return null from
  `normalizeZigDepPath` like POSIX ones; a `/`-only check let them
  through as repo-relative.
- `parseZigBuildZon` accepts the `.dependencies = .{` header only at
  brace depth 1 (a direct field of the file's `.{`), so a same-named
  field nested in an earlier struct cannot hijack the block.
- `importsExecuteWhereWritten: false` on the provider: `@import` is
  compile-time name lookup (as C `#include`, Rust `use`); a body-level
  `@import` is no longer marked `runsOnlyWhenCalled`.
- Namespace imports record the MODULE as `importedName`
  (`zigModuleNameOf`: last path segment without `.zig`), per the shared
  contract; the local handle stays `localName`.
- Keyword-less `<ident> = @import(…)` (`_ = @import("x.zig")` in a test
  block) is a `side-effect` import: file edge, no binding. Only
  `const`/`var` declarations bind a name or feed alias promotion.
- `extractZigFunctionName` doc: an empty name is falsy, so the enclosing-
  function walk skips the test node and continues to the File; it does
  not "end" there.

Not re-fixed: "DIR_LANG has no zig entry" — carried over for the fourth
pass in a row; `test/helpers/literal-collectors.ts` has had `zig` in
`DIR_LANG` (line 91) and `BASENAME_LANGS` since the second-pass commit.

Regression tests: absolute-path spellings, nested `.dependencies`
decoy, namespace/side-effect interpretation, function-scoped `@import`
not deferred (all four fail on the previous source).

* fix(zig): address seventh gitnexus-check review pass

- The scope query's `@import` binding rules are keyword-gated (`"const"` /
  `"var"`, first-child anchored) like every other binding rule, and the
  keyword-less `<ident> = @import(…)` statement has its own
  `@import.side-effect` rule. Tree-sitter queries cannot express "no
  keyword child", so that rule also matches the keyword shapes and
  `emitZigScopeCaptures` drops those (they are the binding rules'
  matches). Behaviour is unchanged from the sixth-pass fix — the existing
  side-effect test covers it — the query text now carries the guard the
  finding asked for.

Not re-fixed: "DIR_LANG has no zig entry" — fifth pass in a row;
`test/helpers/literal-collectors.ts` has had `zig` in `DIR_LANG` since
the second-pass commit. Left for a human reviewer to close.

* fix(zig): resolve @import of the repo's own build.zig modules (F3)

Bare-name imports were resolved through build.zig.zon path deps only, so
the module a repo's ROOT build.zig declares for itself —
`b.addModule("lightpanda", .{ .root_source_file = b.path("src/lightpanda.zig") })`,
imported by name from 378/567 Lightpanda files — never produced an IMPORTS
edge, and nothing reached through `lp.X` resolved. A repo with a build.zig
but no build.zig.zon got no resolution config at all.

- language-config: `parseZigRootModules` (static scan of the root build.zig:
  `addModule("<name>", …root_source_file = b.path("<p>.zig")…)`, and
  `createModule`/`addModule` bindings named via `addImport("<name>", m)` or
  `.imports = &.{ .{ .name, .module = m } }`; generated / `.url` / computed
  modules are skipped) → `ZigBuildZonConfig.rootModules`.
- `loadZigBuildZon` → `loadZigBuildConfig`: reads the zon AND the root
  build.zig; null only when neither contributes.
- resolver: root modules are consulted before path deps; std/builtin/root
  still never resolve.
- fixtures: zig-idioms gains a Lightpanda-shaped root module (+ decoy
  `addOptions().createModule()`); new zig-rootmodule (build.zig, no zon).

Corpus (Lightpanda): IMPORTS 3014→3389 (378 edges to src/lightpanda.zig,
was 0), CALLS 13885→13989, ns.f() 79.3%→83.3%,
param.m() type=ns-qualified 43→46/417.

* fix(zig): import every @import in expression position; resolve @import("x").f()

Both query sets only saw `@import` as the value of a const/var or under
`usingnamespace`, so an @import in any other position produced no file
edge: Lightpanda's `pub const Interfaces = .{ @import("a.zig"), … }`
registration table (288 modules), call arguments
(`CounterEnum("size", @import("ArenaPool.zig").BucketSize)`), comparison
operands (`JsApi == @import("x.zig").JsApi`) and member-call receivers
(`try @import("dump.zig").root(...)`) — 417 of 3,401 in-repo import pairs
had no IMPORTS edge, and the 80 inline-receiver calls resolved 0 times.

Scope query: a catch-all `@import.inline` rule matches every `@import`
builtin; `emitZigScopeCaptures` drops the ones a binding rule (or the
keyword-less side-effect rule) already claimed (by string-node id) so a
bound import is never doubled, emits the rest as side-effect imports once
per distinct source per file, and binds a member-call receiver as a
namespace import whose local name is the builtin's own text — the
`@reference.receiver` text on that call is identical, so the shared
namespace-receiver lookup (Case 1) resolves the member in the imported
module.

ZIG_QUERIES: the three variable_declaration/usingnamespace-anchored
`@import` rules collapse into the same single builtin rule (the structure
phase only skips import matches; one match per builtin keeps
tree-sitter-languages' exact-capture assertion intact).

Lightpanda corpus (zig-corpus-check, before → after): IMPORTS 3014 → 3426,
in-repo pairs missing 417 → 5 (4 under a default-ignored `cache/` dir, 1 a
commented-out import the census regex counts), `@import(..).f()` 0/80 →
72/80 (the 8 left are `@import("root")` and non-import builtins the census
mislabels), CALLS 13885 → 13959; every other line unchanged.

* feat(zig): model file-structs — a file with top-level fields is a Struct named after the file

In Zig every file is a struct; one that declares top-level fields is an
instantiable type whose name is the file stem (`Page.zig` declares `Page`,
`@typeName` agrees), and its top-level `fn`s taking `self` are its methods.
Lightpanda spells 413 of 567 files this way and, before this, `page.getArena()`
on a `page: *Page` parameter resolved 23 of 993 times (2.3 %) — `impact` on
`Page.getArena` reported 0 callers for 159 call sites, and 2,395 top-level
fields were ownerless Property nodes.

Definition phase: `((source_file (container_field …)) @definition.struct)` +
the class extractor names it from the file path (`zigContainerName(source_file,
filePath)`); top-level fns/fields are owned through the new
`LanguageProvider.resolveFileTypeOwner` hook (consulted by
`findEnclosingClassInfo` when the walk reaches the tree root, and by the
method/field extractors' owner lookup) — ids become `Method:<file>:Page.getArena#0`
/ `Property:<file>:Page.session` with HAS_METHOD / HAS_PROPERTY edges.

Scope phase: `emitZigScopeCaptures` emits a Class scope over the whole file
(same range as the Module scope, nested under it — the pair `canParentScope`
already admits) plus a Struct def anchored on it; member NAME bindings are
hoisted back to the Module scope by `zigBindingScopeFor` so `Page.init()`
(namespace member) keeps working, while ownedDefs stay in the Class scope so
`populateClassOwnedMembers` stamps the owner. The file-level `const Page =
@This();` alias no longer mints a Const (it would shadow the Struct); `@This()`
aliases in type position (`self: *SigHandler` in Sighandler.zig, nested
`Self`) are rewritten to the container name so receivers resolve. A namespace
import of a `.zig` file gets a NAMED twin of the file stem so `x: *Page` in the
importer binds the type as well as the module.

Shared, additive: `resolveFileTypeOwner` hook; `filePath` threaded to
`ClassExtractionConfig.extractName` / `extractOwnerName`; nameless
`definition.struct` passes `getLabelFromCaptures` like `definition.class`
already did (extractor synthesizes the name).

Lightpanda corpus (zig-corpus-check): param receivers typed by a file import
23/993 → 993/993; `self.m()` 99.2 → 100 %; annotated locals 11.6 → 23.2 %;
CALLS 13,885 → 15,689; HAS_METHOD 1,477 → 8,003; ownerless Property 2,395 →
276; Function/Method 8,378/1,518 → 2,562/7,330; no row regressed.
Fixture `zig-filestruct` (Page/Session/Sighandler/util) + unit tests pin the
shape, the stem naming, the alias rewrite, the namespace twin and the
unchanged namespace-file behaviour.

* test(zig): expression-position import case sees the file-struct type twin

* fix(zig): stop reading member calls `x.f(arg)` as direct calls named `f`

tree-sitter-zig spells `field_expression` as `object:`/`member:`; the shared
callable-flow reader only knew `property`/`field`/`method`, so every Zig
member call collapsed to a DIRECT call named after the member and the
solver fanned each argument out to every same-named callable
(4,761 cap warnings on Lightpanda, `Global.deinit -> Global.deinit`
self-loops through `pub const release = deinit;`).

Shared (grammar-neutral, receiver-gated):
- `memberParts` also reads `member` (only C/C++ `offsetof_expression` and
  JS `class_body` expose that field, without a receiver field).
- A member call is a field-stored-callable invoke only when a MEMBER store
  (`o->run = handler`, `self.f = target`) or a declared callable-typed field
  is visible — a same-named plain binding no longer gates it.
- `direct-callee-name` requires a direct designator: `.init(x)`,
  `' '.join(x)`, `string.Join(x)` name no callee to seed by simple name.
Zig: formals are numbered without the leading `self`, so `r.run(target)`
joins `cb` and yields `Runner.run -> target`.

Goldens for python/csharp regenerated: the only drift is the dropped
`direct-callee-name` on `' '.join(...)`, `text.strip().ljust(...)`,
`string.Join(...)`.

Lightpanda: cap-warnings 4761 -> 2, cvf self-loops 10 -> 0,
CALLS 13885 -> 13857 (28 removed, all callable-value-flow: 10 self-loops,
17 same-name fan-out, 1 lost `on -> TypeErased.start`; +1 correct
`Arena.alloc -> allocator`).

* fix(zig): bind container field types so `self.field.m()` resolves (F5)

A container's field types were never bound on its Class scope: the scope
query's `container_field` rule captured only the name, and
`emitZigScopeCaptures` synthesized no `@type-binding.field` group. The
compound resolver reads member types from that scope
(`typeOfMemberOnClass` → `classScope.typeBindings.get(field)`), so
`self.session.name()`, `self.counter.incr()` — Lightpanda's dominant
cross-object call shape — resolved 9 of 2803 times (0.3 %).

- query.ts: capture `type: (_)? @declaration.field-type` on
  `container_field` (enum variants have none).
- captures.ts: per typed field, push a `@type-binding.field` group (name =
  field, type = the type text, `@This()` aliases rewritten to the container
  name like parameter types); anonymous inline containers are skipped. The
  binding lands on the container's Class scope — the file's Class scope for
  a file-struct — since `zigBindingScopeFor` hoists only declaration names.
- query.ts/captures.ts: `const page = self.page;` / `var s = self.session;`
  one-level field aliases become `@type-binding.alias` bindings whose "type"
  is the RHS path; the resolver's member-alias branch re-resolves it as a
  receiver chain. Import aliases (`const Counter = counter.Counter;`) are
  dropped — they are named imports.
- interpret.ts: `@type-binding.field` → 'annotation',
  `@type-binding.alias` → 'assignment-inferred' (an annotation on the same
  binding wins).

Corpus (Lightpanda, zig-corpus-check): self.field.m() 11/2803 (0.4 %) →
1433/2803 (51.1 %); ident.m() bound=local-field-access 29/1902 (1.5 %) →
307/1902 (16.1 %); chain.m() 146/5022 (2.9 %) → 642/5022 (12.8 %);
CALLS 15838 → 18066. self.m() / free f() / ns.f() unchanged.

Tests: unit (zig-extractors) — one @type-binding.field per typed field with
sigils stripped and aliases rewritten; the binding hosted on the container's
Class scope (file-struct: the file's Class scope, not Module) with the
written spelling as declaredSpelling; field aliases bound to the RHS path
and never for import aliases. Integration (zig-idioms `holder.zig`,
zig-filestruct `Page.zig`): `viaField → incr` ×2 into counter.zig,
`viaAlias → get/twice`, `sessionName → name` / `sessionLabel → name` into
Session.zig. All fail without the change. The optional-payload capture
`if (self.opt) |c| c.incr()` is not asserted (F6).

* fix(zig): `pub const X = @import(…)` at file scope republishes X (reexportsName)

Lightpanda's `lightpanda.zig` is one long list of `pub const Arena =
@import("Arena.zig");`, and most files name their types through it (`const
lp = @import("lightpanda"); const Arena = lp.Arena;`, `arena: *lp.Arena`).
The scope side treated those bindings as plain imports of the hub file, so
the hub never published the names it re-exports and a third file's `const
Arena = lp.Arena;` (promoted to a named import of `Arena` from the hub) found
nothing.

`emitZigScopeCaptures` now marks named/alias import groups whose declaration
is a file-level `pub const` — the `@import(...).X` form, the alias promotion
`pub const Bar = ns.Bar`, and the file-struct type twin of `pub const Arena =
@import("Arena.zig")` — and `interpretZigImport` sets the shared contract's
`reexportsName: true` on them (the Python `__init__.py` shape, consumed by
`buildReexportClosures`). Private and fn-local bindings stay unflagged.

Not covered here: a receiver ANNOTATED with the dotted hub path (`arena:
*lp.Arena`) — Case 3 of the receiver-bound pass looks the member up with
`findExportedDef`, which only sees locally declared names; following
re-exports there is a shared change left for a follow-up.

* fix(zig): type receivers through `const X = <type expr>;` aliases (F7)

`const LocalAlias = Local;`, `const T2 = Thing;` (alias of an alias/import)
and `const B = util.List(u8);` (an INSTANTIATED generic type constructor)
were plain `@declaration.variable` bindings, so `LocalAlias.mk()`,
`var l = LocalAlias.mk(); l.go()`, `T2.make()`, `B.init()`, `B{}` and
`var x: B` all typed nothing (review repro r3-flow b1..b9; Lightpanda:
`pub const Proto = HtmlElement;` x68, `const Allocator = std.mem.Allocator`
x104, `pub const KeyIterator = GenericIterator(...)`, fn-local
`const R = ...(...)`).

Model: a `@type-binding.alias` binding of the alias NAME to the value's type
text — Rust's `let x = y` / JS's `const B = Foo`, source
'assignment-inferred' — NOT a TypeAlias def. Reasons: (1) the shared
machinery already chains typeBindings (`followChainedRef` in the extractor,
`followChainPostFinalize` after propagation), so `var l = LocalAlias.mk()`
and `var x: B` reach the target through the alias with no new shared code;
(2) nothing shared follows a `TypeAlias` def to its target — `isShapeLike`
only makes the alias itself a member owner (TS object-type aliases) — so a
relabel would have needed language-named shared code; (3) graph node ids
are UNCHANGED: every alias stays `Const:<file>:X`. `normalizeZigTypeName`
already drops the comptime arguments, so `util.List(u8)` binds `util.List`
and resolves through the namespace import (Case 3). The identifier /
member shapes also take `var` (`var cur = orig; cur.go()` — the cursor
idiom, same binding as Rust's `let x = y`).

Heuristic, stated as such: a CALL value is kept only when the callee's last
identifier is TitleCase (Zig's naming convention for types), because the
grammar cannot tell `util.List(u8)` from `util.makeThing()` and the latter
belongs to the call-return rules; the call-return group is dropped for the
same TitleCase shape so the two never race on match order. Import bindings
(`const Stack = @import("x.zig").Stack`), promoted namespace-member aliases,
enum/decl literals (`.foo`) and the `type:` annotation of
`var b: T = undefined;` are excluded.

Not done: the two-hop `pub const bridge = js.Bridge(T); bridge.accessor()`
chain. `js.Bridge` is a Function that RETURNS `bridge.Builder(T)` (a call,
not a container), so the alias binds `js.Bridge`, Case 3 finds a Function
with no members in js.zig, and Case 3b is skipped for a namespace head.
Following that hop needs a namespace-member return-type route in shared
code (or a Zig `resolveQualifiedReceiverMember` hook that re-implements
member lookup without the model); left for a follow-up.

Corpus (Lightpanda, `harness/zig-corpus-check.mjs`): CALLS 15838 -> 16051
(+213, 0 removed), `ident.m() bound=local-alias` 6/63 -> 36/63,
`local-call` 159 -> 176, `module/unknown` 110 -> 116, `local-other`
271 -> 273; `self.m()`, `free f()`, `ns.f()` unchanged or up.

* fix(zig): one alias rule set — F7's alias rules subsume F5's field-access alias rules

* fix(zig): type locals through try/catch/orelse, return types and payload captures

F6 of the gitnexus-check review. Three gaps in the value flow that types a
local receiver, all measured on Lightpanda:

1. `@type-binding.call-return` needed the `call_expression` as the DIRECT
   value child, so `const p = try Page.init(…)` (2,551 sites), `… catch
   return` (410) and `… orelse return` typed nothing. The rule is now one
   keyword-gated declaration match; `emitZigScopeCaptures` unwraps `try`,
   `catch`, `orelse` and parentheses (`zigUnwrapValue`) and decides what the
   value types (`zigCallReturnTypeOf`): a module-level receiver still names
   the type (`Counter.init()` → Counter, Rust `Foo::new()`); a free call
   binds the callee name (`makeThing`); a member call on a fn-LOCAL receiver
   (parameter / local / payload — Zig forbids shadowing, so "declared in the
   fn" is exact) binds the compound `node.asElement()` the shared resolver
   walks to the method's return type — instead of typing `el` as `Node`. A
   TitleCase callee (`List(u8)`) is a type constructor and binds nothing.

2. No `@type-binding.return` existed. `fn make() !*Thing` now binds
   `make ↦ Thing` in the enclosing scope (Module for free fns, the container's
   Class scope for methods, where the compound resolver reads it). Builtins,
   `type`, `@TypeOf(…)` and comptime type parameters (`?*T`) bind nothing;
   `@This()` / `Self` returns name the container. `normalizeZigTypeName` now
   strips the error union BEFORE the payload's sigils, so
   `Allocator.Error!*Page` → `Page` (it used to leave `*Page`).

3. Payload captures had no binding at all. `populateZigRangeBindings`
   (registered as `populateRangeBindings`) types `for (items) |it| / |*it|`,
   `for (items, 0..) |it, i|`, `if (opt) |v|`, `if (call()) |v|`,
   `while (it.next()) |x|` from the SUBJECT's written type minus one layer
   (`[]T` element, `?T` payload) — declining when the layer is not visible
   (`ArrayList(T)`) — and the same projection for `const t = items[i]` /
   `opt.?` / `ptr.*`. `catch |err|` and `switch` prongs are skipped.

Corpus (Lightpanda, gate before → after): CALLS 15838 → 17853;
`ident.m() bound=local-try/catch/orelse` 11/1298 → 584/1298;
`local-call` 159/1282 → 398/1282; `payload` 82/1085 → 233/1085;
`other-recv:call_expression` 5/991 → 457/991; `local-other` 271 → 364;
`self.m()` 100 %, `free f()` 97.5 %, `ns.f()` 83.4 % unchanged; nothing down.

Not covered: `const t = ns.f()` (a namespace fn's return type across files —
Case 3 has no path from a namespace head to a callable's return binding),
and expression receivers (`items[i].run()`, `o.?.run()`).

* fix(zig): resolve leftover fixture merge markers (Page.zig)

* fix(zig): reconcile F6 value inference with F7 aliases and F5 field bindings

- A fn-local TitleCase receiver (`const R = generic.List(u8); var l =
  R.init();`) is a type alias (F7), not a value local: `R.init()` names the
  type `R` like `Counter.init()` does at module level, so `l` chains
  R → util.List → push. F6's local-receiver rule now excludes TitleCase heads.
- The F6 unit helper only collects the value-inferred / return kinds it
  owns; F5 field and F7 alias bindings for the same names are asserted in
  their own suites.

* fix(zig): give function-local and anonymous containers an identity (F8)

`const R = struct {…}` declared inside a fn (Lightpanda's reflection.zig
has ~20, one per builder) all collapsed onto one `Struct:<file>:R` with one
`R.get`; anonymous containers (`std.sort.pdq(…, struct { fn lessThan … }
.lessThan)`, `const byte_size = struct { fn it … }.it;`, `?struct { min,
max }` field types) had no identity at all, so their fns were OWNERLESS
Methods (`Method:<file>:lessThan#3`) that collided across a file.

`zigContainerName` now yields the graph IDENTITY on both phases:
  - function-local named: `<enclosing callable>$<name>` — `Reflect.string$R`
    (Java local-class `$` chain; `populateClassOwnedMembers` leaves it whole);
  - anonymous: `<host>$<ordinal>` — `build$1`, `Outer$1`, `Page$1`
    (javac's `Outer$1` numbering per host, in source order);
  - a `test` host is keyed `test@L<line>` (its string does not survive the
    class extractor's qualified-name normalization).
`zigContainerBindingName` keeps the spelling code writes (`R`) for scope
bindings and `@This()` alias rewrites (`@declaration.binding-name`).

Structure phase: bare `(struct|enum|union|opaque_declaration)` rules mint the
local/anonymous nodes via the class extractor; `shouldSkipDefinitionCapture`
keeps exactly one rule per container (`zigContainerAnchor`); a new
grammar-neutral `resolveContainerTypeOwner` provider hook lets the shared
owner walk name a container from context, so `Method:<file>:Reflect.string$R
.get#0` and its HAS_METHOD source agree by construction. Scope phase: the
wrapper group splits name/binding-name for locals and anonymous containers
get synthesized `@declaration.<kind>` defs (`is-synthetic`).

Lightpanda: ownerless Methods 14 → 0, fns without a node 55 → 0, ownerless
Properties 276 → 5, HAS_METHOD 8003 → 8074, HAS_PROPERTY 7275 → 7403,
CALLS 15838 → 15857, Struct 1905 → 2199; no resolution bucket dropped.

* fix(zig): re-add the implicit receiver on the call side so both method-call spellings reach the callback formal

`extractFunctionParameters` sliced the leading `self` off the formals, which
lined up `r.run(target)` (target@0 ↔ cb@0) but lost the explicit spelling
`Runner.run(&r, target)` (&r@0, target@1 ↔ cb@0): the callback never joined
its formal and `run → target` was missing (PR #1432 review by koriyoshi2041).

Formals are numbered once per function while the receiver differs per call
shape, so the fix lives in `extractCallArguments`: keep `self` as formal 0
and prepend the receiver as actual 0 when the callee is a member call on a
VALUE receiver — chain head is a fn-local name that is not TitleCase, the
same value-vs-type rule F6 uses. Namespace / type / decl-literal receivers
(`Runner.init(cb)`, `helpers.apply(cb)`, `List(u8).init`, `.init(cb)`) get
no prepend. Known residual gap, documented: a module-level value receiver
(`global_runner.run(cb)`) is not fn-local and still misses.

Tests: the F2 integration case now asserts both spellings plus a namespace
call; the unit contract pins `self@0, cb@1` and the per-call actual index.

* fix(zig): address eighth gitnexus-check review pass

- Named dependency modules: `parseZigBuildModuleRoots` scanned
  `addModule("<name>", .{ … })` with a `[^}]*` regex, so a nested field
  before `.root_source_file` (`.imports = &.{ .{ … } }`) ended the match
  at the inner `}` and demoted the module to an unnamed fallback — the
  first exe/lib root in the file then answered `@import("<name>")`. The
  named lookup now walks the balanced `addModule(…)` argument list
  (same scanner as `parseZigRootModules`, comment-stripped, string-aware);
  the unnamed fallbacks are unchanged. Regression test in
  `zig-import-resolver.test.ts`.
- Type-position `@import`: `var x: @import("m.zig").T = undefined;` was
  read as an import binding of `x` on both sides — the query rules match
  the `type:` child like a value, and `isZigContainerOrImportBinding`
  scanned every named child — so `x` was never declared and became a
  named import of `T`. The helper now skips the `type:` field, and
  `emitZigScopeCaptures` drops binding-rule matches whose `@import` sits
  in the annotation (`isZigTypePositionImport`) without claiming the
  source, so `x` binds as a variable and the file edge survives as a
  side-effect import. Regression tests in `zig-extractors.test.ts`
  (variable extractor + scope captures).
- Union in the class-capture skip guard: the parse-worker's inline
  class-like predicate lacked `Union`, so a `Union` definition bypassed
  `shouldSkipClassCapture` unlike every other `ClassLikeNodeLabel`.
  Added the label; no Zig behavior changes (Zig defines no skip hook), so
  no test.
- File-owned method ids in `findEnclosingFunctionId`: the arity lookup
  used `findEnclosingClassNode` while the owner came from the file-owner
  aware `cachedFindEnclosingClassInfo`, so a Zig file-struct's top-level
  fn produced `Method::Page.get` without the `#<arity>` suffix. It now
  uses `findEnclosingClassNodeOrFileOwner`, the definition-phase lookup.
  Consistency fix only: `ParseWorkerResult.calls` / `.assignments` (the
  sole consumers of this id) are merged but not read since #942 — CALLS
  edges come from the scope pipeline, whose ids were already right — so
  no observable graph change and no test.

Not re-fixed:
- `test/helpers/literal-collectors.ts` `DIR_LANG` has no `zig` entry
  (raised for the seventh time): the entry exists (`zig:
  SupportedLanguages.Zig`, added by the second-pass commit), so
  `languages/zig/**` literals are already validated against the Zig
  grammar alone; documented in the PR body since the fifth pass.

* fix(zig): keyword-gate the constructor type-binding rules

The three `@type-binding.constructor` rules (`const p = T{…}`, `mod.T{…}`,
`List(u8){…}`) matched any `variable_declaration` with an identifier and a
`struct_initializer`, keyword or not — and tree-sitter-zig 1.1.2 parses a
re-assignment `p = T{…};` (and `_ = T{…};`) as the same node type. So an
assignment minted a constructor binding for `p` in its own block, and one
for `_`. Zig's static typing makes the extra binding redundant (`p`
already carries its type from its declaration: annotation, constructor or
inferred value), so it cost little, but it declared nothing and stood out
against every other binding rule (`@declaration.variable`, the import
rules, the call-return rules), which are keyword-gated for exactly this
shape. Split each rule into `"const" .` / `"var" .` variants, like the
call-return rules.

Regression test in `zig-extractors.test.ts`: `p = T{…}`, `q = mod.T{…}`,
`l = List(u8){}` and `_ = T{…}` after their declarations yield only the
three declaration bindings (fails on the previous query). The zig,
callable-value-flow, grammar-literal and tree-sitter-languages suites are
unchanged.

Raised twice by gitnexus-check (passes on 2026-08-18 12:42 and 12:56).

* fix(zig): re-baseline the callable-flow capture fingerprints, keep `await f<T>(x)` a direct callee

The `benchmarks (GITNEXUS_BENCH)` CI job gates two capture fingerprints
that this branch's shared callable-flow change (3e62b99a) moved without
re-baselining: `bench/python-scope/baseline-fingerprint.txt` and four
languages in `bench/scope-capture/baselines.json` (csharp, cpp,
typescript, kotlin). Both `--check` runs pass on origin/main and failed
on this branch; every other language matched its baseline on the same
run.

Drift, verified by dumping the canonical matches on both trees:
- csharp / kotlin / python: exactly the intended change — a MEMBER call
  (`string.Join(x)`, `.forEach { }`, `' '.join(x)`, `.ljust(w)`) no
  longer carries `direct-callee-name`; the argument fact is unchanged.
- cpp: `choice.select(1)` (cpp-deleted-overload) drops an INDIRECT
  invoke + its synthetic `@reference.call.free` that were gated only by
  the same-named free `select` binding; the site is a genuine method
  call already captured as `@reference.call.member`. capture_groups_fp
  4605 -> 4601.
- typescript: `await svc.verify<T>(x)` (member) and `initializer()(cb)`
  (call-of-call) drop the name as intended. But `await verifyToken<T>(x)`
  — a DIRECT call — lost it too, because tree-sitter-typescript parses
  `await f<T>(x)` as `call_expression(function: await_expression(f),
  type_arguments, …)` and the new direct-designator gate saw an
  await_expression, not `f`. `wrappedExpression` now unwraps
  `await_expression` (no named field, so the field-based unwrap missed
  it), restoring parity with main for the direct spelling while the
  member spelling stays nameless. Regression test added; it fails
  without the unwrap on both assertions.

Gates run locally: scope-capture --check (15 languages), python-scope
--check, import-target --check, tsc, eslint, prettier, the callable-flow
/ golden / tripwire / resolver test files (33 files), full suite with
coverage (82.9/71.5/89.1/86.4 vs 26/23/28/27 thresholds).

* test(zig): fail CI when the optional Zig grammar is absent

`@tree-sitter-grammars/tree-sitter-zig` is an optionalDependency, so every
Zig suite gates on `isLanguageAvailable(Zig)` and the ABI load-smoke accepts
a clean load failure for an optional grammar. Both are the right contract for
a platform with no prebuild, and together they leave a hole: if the grammar
never installed on any CI runner, this PR would merge with all eight Zig
resolver suites plus the structure-phase suite reported green-by-skip, having
never executed the native Zig parser once.

Close it with the `GITNEXUS_REQUIRE_FTS` idiom already used for the FTS
suites. `GITNEXUS_REQUIRE_ZIG=1` declares "this runner has a prebuild, the
grammar MUST be here", and a missing grammar becomes a failure instead of a
skip. tree-sitter-zig@1.1.2 publishes prebuilds for {darwin,linux,win32}-
{x64,arm64}, so the flag is set on two required jobs that all run on covered
platforms: the sharded ubuntu `tests` job and the three-OS `abi-assert` job.

- test/helpers/optional-grammar.ts: the registry mapping a language to its
  require-variable, plus `describeGrammarPresence`, a presence assertion that
  FAILS when required-but-absent. Deliberately a separate test rather than
  flipping the suites from skip to fail: a skipped suite reports success, so
  only a failing test can turn "Zig never ran" into a red job.
- parser-loader-abi.test.ts: the optional exemption is revoked for a language
  the environment declares required, so an ABI-broken Zig binding fails the
  smoke instead of passing as a clean absence.
- optional-grammar-gate.test.ts: pins the two ways the gate could silently
  never fire — reading a variable name CI does not set, or accepting a value
  CI does not write.

Nothing changes for a run that leaves the variable unset: local runs and any
future prebuild-less platform still skip. Verified both directions --
`GITNEXUS_REQUIRE_ZIG=1` alone: 149 passed, 0 skipped; with
`GITNEXUS_SKIP_OPTIONAL_GRAMMARS=1` forcing the grammar away it fails 2 tests
with an actionable message; with the skip flag but no require flag it is
green-by-skip exactly as before.

Addresses the test-only blocker in the gitnexus-check review of #1432.

* fix(zig): type the optional-grammar gate by grammar key, not language

The gitnexus-check finding on parser-loader-abi.test.ts:155 is right, and
none of the gates caught it: `tsconfig.json` includes only `src/**/*`, so
neither `tsc --noEmit` nor CI typechecks the test tree, and vitest strips
types without checking them. Confirmed with a scoped tsc run over the file:
`error TS2345: Argument of type 'string' is not assignable to parameter of
type 'SupportedLanguages'`.

Not fixed with the proposed `key as SupportedLanguages` cast, which would
assert something false: `listGrammarSources()` yields one row per SOURCES
entry, including variants like `typescript:tsx` that are not enum members.
`isOptionalGrammarRequired` now takes the grammar KEY it is really given,
and the registry keeps a `satisfies Partial<Record<SupportedLanguages,
string>>` so every key we write is still pinned to a real language.

Two new cases cover the failure mode the type error was pointing at — a
registry key that can never match what the ABI smoke passes, leaving the
gate configured-looking and permanently inert: every OPTIONAL_GRAMMAR_ENV
key must be a key `listGrammarSources()` yields and must be marked optional
there, and an unregistered variant (`typescript:tsx`) must not be required
even with the variable set.

Same blind spot, two more latent errors in files this PR adds, both fixed:
`Parser.Language` is not an exported member (use the `setLanguage` parameter
type, as parser-loader-abi.test.ts already does), and the `ParsedImport`
filter did not narrow the union, so `localName` was read through a `!` on an
arm that has no such property — now a type predicate. The one remaining
error under the same probe, in `resolvers/callable-value-flow.test.ts:319`,
predates this branch (authored 2026-07-17, on main) and is left alone.

structural-pair-coverage's optional-grammar case switches from
`it.concurrent.each` to `it.concurrent.for`: only `for` passes the test
context as a second argument (`each`'s callback is `(...args: T[])`), and
that context carries the dynamic `skip()` the per-language gate calls.
Behaviour is unchanged — grammar present: 10 passed; grammar forced away:
9 passed, 1 skipped.

Whole test tree typechecking is a separate, much larger job: the same probe
over `test/**` minus fixtures reports 734 pre-existing errors across the
repo. Out of scope here.

* fix(zig): address tenth gitnexus-check review pass

- `normalizeZigDepPath`: normalize backslashes BEFORE the absolute-path
  check. A UNC dep (`\\server\share\dep`) used to slip past the check and
  normalize to the repo-relative `server/share/dep`; root-relative `\dep`
  had the same hole. Both now return null. Regression case added to the
  absolute-spellings test with the files those misreadings would resolve.
- `bindPayloads`: a pointer capture `for (pages) |*p|` now records `*Page`
  (declaredSpelling) instead of `Page` — the `*` is an anonymous payload
  child before the identifier. Method dispatch is unchanged (`rawName`
  strips the sigil), but a deref projection `const q = p.*;` now sees the
  pointer layer. New fixture fn `viaPtrCaptureDeref` + assertion; fails on
  the previous code (verified by stashing the src fix).
- `optional-grammar-gate.test.ts`: renamed the `typescript:tsx` case — the
  key IS a registry row; what makes it inert is the missing gate entry. Now
  also asserts a key no registry yields.
- `structural-pair-coverage.test.ts`: header updated — ten tables (not
  eleven) are absent from every rule's target side; `Union` left the set
  when Zig made it linkable.
- `language-classification.ts`: doc comment now names zig in the
  experimental set (added after Ring 1).

Not re-fixed (invalid findings):
- "owner-hook contract wired to an undeclared variable": stale-diff read —
  `findEnclosingClassInfo` declares `resolveFileTypeOwner` /
  `resolveContainerTypeOwner` as optional parameters (ast-helpers.ts:905,
  917) and parse-worker threads them at every call site; tsc compiles clean.
- "optional Zig grammar added unconditionally to the parsing fixture
  suite": the cited block only `fs.readFile`s the committed fixture file to
  assert it is non-empty — no parser or grammar load is involved.

* fix(scope-resolution): mark construction-site CALLS edges in reason (opt-in), enable for Zig

PR #1432 human review, item 2: a Zig struct literal `T{ .f = x }` (no
parens) is modelled as a CALLS edge to the type — the Rust `T { .. }` /
Go `T{}` shape — and nothing on the edge told it apart from an invocation
(`get_next_spawn → SpawnRequest` from seven `return SpawnRequest{ … }`).

`ScopeResolver.markConstructionSites` (default off): when set, the edge
emitted for a `callForm === 'constructor'` site gets ` (constructor)`
appended to its reason, in both emit paths — `local-call (constructor)` /
`import-resolved (constructor)` in the free-call fallback and
`scope-resolution: call (constructor)` in the reference bridge. The Zig
resolver opts in. `Reference` gains an optional `callForm`, copied from
the site by `buildReference`, so the bridge can see the form.

Why `reason` and not a property or edge type: relationships carry no
arbitrary properties, a new column changes the relation DDL and moves
SCHEMA_FINGERPRINT, and `reason` is the channel the IMPLEMENTS `-pointer`
receiver form already uses. Why opt-in: the unsuffixed strings are a
pinned contract asserted verbatim by the other language suites
(php/cpp constructor calls expect exactly `import-resolved`); every
non-Zig edge stays byte-identical.

Tests: `references-to-edges-call-form.test.ts` pins both vocabularies
and the default-off behaviour; `zig.test.ts` asserts
`Reflect.string → Accessor` / `Reflect.url → Accessor` carry
`local-call (constructor)` next to a plain invocation, and that every
marked edge targets a Struct.

* feat(zig): track qualified struct literals (`mod.T{…}`) as construction sites

PR #1432 re-test (issue comment on 97571d23): 163 qualified literals
`mod.Type{ … }` in a real project produced no CALLS edge at all, so only
same-file and imported-name literals were tracked as construction sites.

One query rule captures `(struct_initializer (field_expression object
member))` as `@reference.call.constructor` WITH the receiver. Captured as a
free constructor instead, the site resolves by its simple tail and a
workspace-unique `Thing` answers for `c.Thing{}` whichever module the
source named (measured: c.zig defines no `Thing`, the edge went to a.zig's).
With the receiver the site takes the receiver-bound namespace case — the
path `mod.fn()` takes — which resolves inside the module the receiver is
bound to: `a.Thing{}` / `b.Thing{}` bind their own files, `c.Thing{}` binds
nothing, `std.Thread.Mutex{}` binds nothing next to a local `Mutex`.

That case's edge now goes through `constructionSiteReason` too, so the
opt-in marker (`import-resolved (constructor)` / `global (constructor)`)
reaches it; `markConstructionSites` joins `ReceiverBoundProviderSubset`.
Byte-identical for every provider that does not set the flag.

Also answers the twelfth gitnexus-check pass: the `bodyNodeSet.size === 0`
guard on the extractor factories' no-wrapper branch is deliberate (a config
with wrappers whose node lacks one is a bodiless declaration); the two
comments now say so instead of reading as a universal last resort. Go's
method config, the only other empty-`bodyNodeTypes` config, never reaches
the branch (its `extract()` gates on method/function nodes the class-node
caller never passes).

Tests: new `zig-qualified-literal` fixture (same-named `Thing` in two
modules, a module without it, an external `std` qualifier next to a local
and an imported `Mutex`); `zig-basic` pins `pioneer.Pioneer{…}` and the
union `pioneer.Tag{…}` as marked construction sites.

* feat(zig): resolve hub re-exports, enum-variant receivers and type-named receivers (real-project audit)

Audit of three real Zig projects indexed with this branch (tigerbeetle 246
files, mach 132, ghostty 788): method reachability was 63 % / 35 % / 55 %,
and three shapes accounted for most of the misses.

1. Hub modules. Zig projects publish types through a file made only of
   re-exports (`pub const Terminal = @import("Terminal.zig");`, `pub const
   PRNG = @import("prng.zig");`, `pub const Thing = @import("thing.zig")
   .Thing;`). Such a file owns NO local binding, and `findExportedDef` reads
   local bindings only — so `terminal.Terminal.init()`, `t: stdx.Thing`,
   `var p = stdx.PRNG.from_seed()` and `h: stdx.BoundedArrayType(u8, 4)`
   all resolved to nothing. Measured before → after: CALLS into ghostty's
   `src/terminal/` from outside it 46 → 253 (150 `terminal.Terminal.` sites
   alone); into tigerbeetle's `stdx` hub from outside it 837 → 1500 (136
   static calls, 289 annotations). Method reachability: tigerbeetle
   2249 → 2272 of 3544, ghostty 2766 → 2865 of 5016, mach 1047 → 1051 of
   2967 (mach's hub publishes generic instantiations, `pub const Quat =
   q.Quat(f32)`, a shape this commit does not cover).
   `findExportedDefIncludingImportedNames` reads the finalized channel
   (origin import / namespace / reexport, def already resolved to the
   declaring file), refusing a name bound to two distinct defs. Opt-in per
   provider (`namespaceExportsIncludeImportedNames`): a module's imports are
   not its exports in most languages; Zig opts in because a hub member a
   consumer can name is public by construction. Used by receiver-bound Case
   1, Case 3, the compound resolver's namespace branch, and a new Case 2
   route that resolves a namespace-qualified class receiver (`stdx.PRNG`)
   through the same lookup.

2. Enum variants as receivers. `Operation.create_accounts.event_max()`
   (147 sites in tigerbeetle): a variant has no written type, but it has
   one — the enum itself. `emitZigScopeCaptures` now emits a field type
   binding per enum variant, so the field walk that already handles
   `self.session.name()` types `Op.create` as `Op`.

3. Receivers named after their type. `self` is a convention, not a rule:
   tigerbeetle writes `replica: *Replica` (777 of 1127 methods), mach
   `pool: *@This()` (764 of 833). Reading only `self` as the receiver
   labelled all of them `isStatic: true`, counted the receiver in their
   arity (`Counter.incr#1`) and sourced the scope binding as a plain
   parameter. `zigReceiverParameter` is the single rule for both phases:
   the FIRST parameter when named `self`, or typed as the enclosing
   container (`@This()`, its binding name, a `const X = @This();` alias),
   pointers / const / optionals stripped.

Fixtures `zig-hub` and `zig-receivers` pin each shape, including the
refusals: a private hub import does not leak, a foreign-typed first
parameter is not a receiver, a factory stays static.

* fix(zig): address thirteenth gitnexus-check review pass

- File-struct receivers named after the file stem were always static: the
  method builder called `isStatic` / `extractReceiverType` /
  `extractParameters` without the extractor context's `filePath`, so
  `zigReceiverParameter` could not name a file-struct (`fn add(ledger:
  *Ledger)` in `Ledger.zig`, no `Self` alias) and the fn came out static
  with the receiver in its arity (`Ledger.add#2`) — an id the scope side,
  which always has the path, never produces, so its CALLS edges went
  nowhere. `MethodExtractionConfig` now passes `filePath` as an optional
  trailing argument to those three hooks (same shape as
  `extractOwnerName`); the Zig config threads it through, every other
  config ignores it. Regression tests in `zig-extractors.test.ts` (unit)
  and `resolvers/zig.test.ts` (new `Ledger.zig` in the `zig-receivers`
  fixture: ids, `isStatic`, and the three CALLS edges); both fail on the
  previous source.
- `LINKABLE_LABELS` comment: the remaining `CLASS_KINDS` entries include
  `Namespace`.

Not re-fixed:
- "Ownerless-method assertion regex cannot match `.zig` graph IDs": the
  `[^:]+` segment consumes the whole file path (dots included) up to the
  second colon, and `[^.]+#\d+$` then matches only an owner-less name —
  `Method:src/Sorter.zig:lessThan#3` → true, `…:Sorter.sortBoth$1.lessThan#3`
  → false, checked with node.
- "Public namespace imports are never marked as re-exports": the shared
  `ParsedImport` namespace variant has no `reexportsName` field and
  `contributesReexportEdge` excludes namespace drafts on `base.kind` by
  contract; a `pub const X = @import("x.zig")` hub member is exposed
  through `findExportedDefIncludingImportedNames` instead, which is what
  the audit commit added for exactly that shape.
- "Private Zig namespace imports are treated as public hub exports": a
  private import cannot be named through the hub in code that compiles,
  and `findExportedDef` applies the same no-visibility rule to local
  defs; the finalized binding channel carries no `pub` bit to check.
- "Range binding mutates finalized scopes" and "unconditionally adds an
  optional Zig grammar to the fixture suite": refuted in the tenth and
  eleventh pass notes of the PR body, unchanged since.

* fix(zig): close the adversarial review's ten findings (8.2–8.12)

PR #1432 review 5095267917 on 34c53473 retained eight P1 and two P2
findings; each is reproduced on the new `zig-chains` / `zig-buildmodules`
fixtures with the decoy that made the old answer wrong, and pinned by a
test named after its number.

- 8.2 per-build-module import tables (`parseZigBuildModules`): a source
  resolves a bare name through its own module's `addImport` table (root
  file, else deepest root directory), fails closed when same-directory
  modules disagree, and follows `addImport("api", dep.module("core"))`
  through the dep's `addModule`; repo-wide names and zon deps remain the
  fallback.
- 8.3 module-level value receivers (`zigHostValueNames`) prepend the
  implicit `self` like fn-locals, so `global_runner.run(cb)` joins `cb@1`.
- 8.4 deep member aliases (`@import("lib.zig").B.work`, `lib.B.work`)
  keep the written owner: the module is bound as a namespace and the
  alias's use sites are rewritten to `receiver . member`; only one-level
  aliases are promoted to named imports.
- 8.5 container-hosted containers get owner-qualified identities
  (`A.Item`, `B.Item`, `Outer.Inner`), minted by the bare-container rule,
  while the scope keeps the lexical binding.
- 8.6 result-location `.init(…)` / `.{…}` under an annotation, a return
  type or a field type emit the call / construction site with the
  expected type as receiver.
- 8.7 Zig arm in bench/import-target (five dispatchers, config-free
  fingerprint) + baselines row; `--check` passes.
- 8.9 fn-local `@import` bindings and their uses are keyed per callable
  (`m$f_sib_a`), so sibling fns no longer share one namespace bucket.
- 8.10 `ScopeResolver.resolveNamespaceChains` (opt-in, Zig only): Case 1
  / Case 2 / Case 3 and the compound resolver walk a qualified receiver
  segment by segment — republished modules, nested types, enum variants
  through the module — refusing ambiguous hops. Off, every lookup keeps
  its one-hop split; the 70 resolver suites are unchanged.
- 8.11 `@import("a.zig").Thing{}` binds the module as a namespace in type
  position; `List(u8){}` / `lists.List(u8){}` get constructor sites.
- 8.12 a fieldless file whose top-level fn takes the file's own type
  (`self: *@This()`, `self: *Self`) is a file-struct; two over-matching
  ZIG_QUERIES rules are filtered by `shouldSkipDefinitionCapture`.

Also asserts the committed `opmod.Op.lookup.event_max()` call in zig-hub.

* fix(zig): address gitnexus-check findings on 215f70e3

- receiver-bound Case 3 wraps its reason in constructionSiteReason, like
  Case 1 and the nested-type route of Case 2 (one vocabulary per provider)
- resolveZigImportInternal rejects drive-qualified absolute imports
  (C:\foo.zig), the same test normalizeZigDepPath applies; unit case added
- the compound resolver's chain seed also tries the whole receiver as the
  qualified class (opmod.Op), as a bare class-name head already does
- markConstructionSites contract text names the receiver-bound routes

The return_type field claim is refuted: tree-sitter-zig exposes a fn's
return type as the type field (checked on the grammar).

* fix(zig): a build-module alias bound to an unindexed root fails closed

resolveThroughBuildModules returned undefined when the containing module
bound the alias to a file that is not indexed, which let the repo-wide
addModule map answer under the same name (gitnexus-check on 5299c552).
The module's table is the authority for its aliases: bound-but-unindexed
is null, only an unbound name falls through. Unit case with a same-named
repo-wide decoy, plus the outside-module file that still reaches it.

* fix(zig): an unindexed root module fails closed, never a same-named zon dep

The root build.zig's addModule declaration is authoritative for a bare
name when it binds it; a root that is not indexed used to fall through
to a build.zig.zon path dep of the same name — a different declaration
answering under the name (gitnexus-check on fe24b37f). Same rule as the
build-module tables. Unit case added.

* Address PR review feedback (#1432)

Tighten Zig build-module parsing, receiver/merge helpers, and container queries that gitnexus-check flagged on the open threads.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Address PR review feedback (#1432)

Attach the paren-matcher doc comment to findZigParenEnd instead of zigTopLevelStaticRoot.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Simplify Zig review-feedback helpers after #1432.

Reuse ZON brace/string walkers for top-level root_source_file, drop the dead bind flag and one-off staticRoot wrapper, and merge bindings via a first-wins map.

Co-authored-by: Cursor <cursoragent@cursor.com>

* bench(receiver-resolution): rebaseline for the Zig lang-resolution fixtures

The receiver-resolution gate (#2856/#2899) landed on main after this branch
forked and counts call drops over test/fixtures/lang-resolution, which this
branch extends with the zig-* fixture projects. Regenerated with
`measure.mjs --update-baseline`: callDrops 102 -> 113, all 11 new drops in
.zig files, shape `no-chain`.

Every new drop is a call whose callee has no node in the corpus, not a
resolver regression: `std.Build.Module.addImport` in the three build.zig
fixtures (7, classified in-program), `std.sort.pdq` in Sorter.zig (2,
unknown), `std.Thread.Mutex{}` / `std.mem.Allocator{}` literals in
zig-qualified-literal (2, unknown, the fixture asserts std stays external),
and one `.init()` decl literal on a generic instantiation
(`const u: Stack(u16) = .init()`, in-program). Shape arm unchanged.

---------

Co-authored-by: Garrett Griffin-Morales <grgisme@gmail.com>
Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
2026-09-03 13:29:42 +01:00
Gergő Magyar
12763a40c8
fix(watch): await a watcher re-arm barrier so gitignore reloads cannot drop events (#3159)
* Increase CI timeout budget for flaky watch-filesystem test

* test(watch): include elapsed budget in waitFor timeout errors (#3156)

Make CI flake timeouts self-describing without raising the 90s ceiling, and cite the mcp/server-startup 15s/5s convention in the helper comment.

* fix(watch): await a watcher re-arm barrier after an ignore-rule reload

An ignore-rule reload re-armed the watcher with `watcher.add(repoPath)`,
which returns before the rescan it starts has finished and offers no signal
for that completion. A file the reload had just unignored was therefore still
unregistered when the call returned, and since `ignoreInitial` suppresses the
`add` that the in-flight rescan would emit, an immediate rewrite of that file
was dropped permanently. A standalone reproduction missed the rewrite 40/40
times on both chokidar 4.0.3 and 5.0.0.

Re-arm by arming a replacement watcher and awaiting its `ready` instead, which
is the only completion signal chokidar exposes (`ready` never fires twice on
one instance). The re-arm runs before the refresh, so a write that lands while
the replacement arms is still read by that refresh; the outgoing instance keeps
reporting until the swap, so no event window is dropped; and a replacement that
fails to arm leaves the working instance in place for the queue to retry. The
transient-watcher-error path now requests the same awaited re-arm rather than
re-arming inline ahead of its catch-up refresh.

This replaces the CI timeout increase from #3156, which treated the symptom:
the test was not slow, it was waiting for an event that never came.

Co-authored-by: Cursor <cursoragent@cursor.com>

* refactor(watch): drop restating comments and duplicated waitFor state

The re-arm error now uses the same cause-wrapping shape as ignore-control
reload, and the instant-rewrite test waits for both paths in one poll.

Co-authored-by: Cursor <cursoragent@cursor.com>

---------

Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com>
Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
2026-09-03 11:25:51 +00:00
glier
b15ff2d888
feat(ingestion): mint Destination nodes from AsyncAPI 3.x documents (#3140)
* feat(ingestion): read AsyncAPI 3.x documents into broker addresses

Adds a format-driven reader that turns the `operations[]` entries of an
AsyncAPI 3.x document into (broker, address, direction) triples, plus the
protocol-to-broker map behind it. Nothing consumes it yet.

The reader lives outside `frameworks/spring/` on purpose, like
`destination-key.ts` and for the same reason: an AsyncAPI document is a
published artifact emitted by generators across several language toolchains
and written by hand as often as generated. The entry criterion is therefore
the document format -- a root `asyncapi` key -- and never the generator.

AsyncAPI 2.x is refused under its own countable reason rather than mapped.
Its `publish`/`subscribe` are inverted relative to 3.x `send`/`receive`, so
a naive mapping reverses every direction in the async graph while leaving it
connected: nothing fails, the arrows simply point the wrong way. A silent
skip would be indistinguishable from "this service publishes no document",
which is the one thing the refusal count has to be able to tell us.

The broker is read twice over -- from the operation's bindings and from its
channel's server protocol -- and the two readings must agree. A destination
keyed on the wrong broker joins a stranger, and with the document
contradicting itself there is no way to tell which reading is right, so the
operation is refused rather than decided by a coin flip.

An unmapped protocol passes through as its own literal instead of being
dropped, because `destinationNodeKey` takes a plain string precisely so a
non-Spring caller can attest to a broker Spring has no member for.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(cli): add --asyncapi-spec, an explicit path to AsyncAPI documents

Threads an `asyncApiSpecPath` option from the CLI, the server analyze
endpoint, and the programmatic entry through to `PipelineOptions`. Nothing
reads it yet; the reader added in the previous commit is still unwired.

Shaped deliberately after `springActuatorPath`, the existing option for an
out-of-band artifact: an explicit local path, accepting a directory or a
single file, resolved against the repository root so a committed
`docs/asyncapi` and an absolute cache populated by something else are both
natural, and `undefined` keeping the feature entirely off. Mirroring that
option rather than inventing a mechanism is what lets a downstream consumer
point the reader at documents fetched out of band without patching a file
here.

`analyze --watch` REJECTS the flag, exactly as it rejects --spring-actuator.
The watcher reacts to source changes and nothing watches a document
directory, so honouring it there would read the documents once and then
serve a stale answer for the rest of the session -- worse than refusing,
because it looks like it worked.

Additive only: 49 inserted lines, no deletions and no modified lines. Every
new interface member is optional and every forward is an object-literal
spread of an undefined value, so with the option unset the analyzer takes
byte-identical paths.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(ingestion): mint Destination nodes from AsyncAPI documents

Wires the reader into the destinations phase. With `--asyncapi-spec` set,
every `send` operation emits PUBLISHES_TO and every `receive` emits
CONSUMES_FROM against the ordinary resolved `Destination` node -- same key,
same `address` property -- so a document and a source site that name one
address on one broker land on ONE node and the two halves of a conversation
meet. Verified end to end: an address named only in a document is minted
with the right broker and direction, and an address a source site already
resolved stays a single node with its own `literal` provenance while the
same address on a different broker stays separate.

This claims only what a document states -- that the service talks to that
address, on that broker, in that direction -- and never which method does
it. The addresses in one document partition by (broker, action) into buckets
that usually hold more than one operation, so any assignment past a bucket
of size one is a heuristic, and a wrong one attaches a real address to the
wrong handler: a false connection wearing the clothes of a resolved one. The
edge therefore starts at the document, not at a callable. That is weaker
than a source-derived edge and worth having anyway, because it is available
where the source supplies nothing at all -- a programmatically registered
listener, a broker with no patterns here, a language whose messaging idiom
nobody has taught this codebase yet.

Documents are read even when the source pass found no messaging, which is
why the early return had to move: a repository whose brokers are invisible
to the patterns is precisely the case a published document covers, and an
early return keyed on source sites skipped the documents exactly there.

Their counters are kept in their own block rather than folded into the
existing ones. `refusalsByReason` is the denominator of the SOURCE
unresolved fraction, and a mistyped specification directory must not be able
to make the source look worse than it is. The block is absent -- not zeroed
-- when no path was configured, so "not asked for" stays distinguishable
from "asked for and found nothing"; those need different answers from an
operator and one zero cannot say which happened.

The direction assertion is the one that matters and it is pinned by type,
not by existence: inverting the mapping in the source tree fails exactly one
test, because every other assertion passes identically under both readings.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* docs: document --asyncapi-spec and why step 4 of the cascade stays empty

Adds the flag to both READMEs and to the three byte-identical copies of the
CLI skill, which a sync test pins together.

Also rewrites the note on the `specification` seam in the address cascade.
It said "nothing supplies it today", which was true and is now misleading:
a reader exists, and the hook is still unsupplied because of a decision
rather than for want of one.

A document names addresses; it does not name the method that uses one. To
hand an address to a particular candidate something must choose which of the
document's operations belongs to it, and the only division both sides agree
on -- (broker, action) -- leaves buckets that usually hold more than one
operation. On a real generated document exactly one bucket of four was
unambiguous. Every assignment past a bucket of size one is a heuristic, and
a wrong one puts a REAL address on a joining node under the wrong site: a
false connection wearing the clothes of a resolved one, which is the outcome
the keying rule exists to prevent.

The note also records the two things that would change that and are not
heuristics -- a document carrying the implementing symbol, or a
configuration source answering the `${key}` the candidate already recorded
-- and that the second wants its own resolver, since what it needs is the
placeholder key rather than the candidate.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(ingestion): refuse the document shapes that would forge a join

Four ways a conformant AsyncAPI document could mint a Destination that
connects two services which have said nothing about each other. Every one is
reachable from ordinary 3.x vocabulary, not from malformed input, and each is
now a countable refusal.

A PARAMETERIZED ADDRESS is a pattern, not a place. Two services that publish
`{env}.orders` share a template; one deploys with env=prod and the other with
env=staging, and keying on the template text merges them into a single node
with a publisher on one side and a subscriber on the other. This is the
document-side twin of `overridable-config-default`, which argues the same
thing about `${key:default}` in source. A channel declaring `parameters` is
the specification's own statement that its address is a template, so the
detector is a reading rather than a guess; the `{` test catches generators
that template without declaring.

ANY BINDINGS KEY WAS TAKEN AS A PROTOCOL. AsyncAPI allows `bindings` to be a
Reference Object, so the map's own key can be `$ref` -- and passed through,
that becomes half of a join key carrying no broker information at all. Two
services that both reference shared bindings and both name `orders` then land
on one node, defeating the broker-in-key rule that keeps `kafka orders` and
`rabbit orders` apart. A broker must now be spelled like a protocol name.

A BROKER CONTAINING A SPACE COLLIDES, because the node key joins with one:
("kafka orders", "x") and ("kafka", "orders x") are the same key. That was
latent while every broker came from Spring's closed union. This module is the
first caller to feed the shared helper text that a document wrote, which is
exactly the condition under which it stops being latent, so it is closed here
-- at the producer -- rather than by changing an encoding that `routeNodeKey`
shares.

THE ADDRESS WAS TRIMMED, while the source cascade keeps an address exactly as
written so `" orders "` stays its own node. Two producers of one key held
opposite whitespace policies and the document side erred toward joining.

Also: fold the transport-security protocol variants (`kafka-secure`,
`secure-mqtt`, `wss`, `stomps`, `https`) onto their base protocol. The
`amqp`->`rabbit` argument already in this file demands it -- AsyncAPI's server
vocabulary distinguishes them and its bindings vocabulary does not, so a
secured cluster's own document was being read as self-contradictory. Treat a
channel with no `servers` as available on all of the document's servers, which
is the specification's default and was costing every single-server document
its destinations. Bound the address and operation-id lengths, because
`generateId` concatenates rather than hashes, and bound total operations
across the run rather than only per document.

Read each file through ONE handle for both the size gate and the read, as
`actuator-runtime.ts` does and for the reason its comment gives (CodeQL
js/file-system-race): re-resolving the path lets a swapped file bypass the
cap, and the out-of-band cache this option reads is written by other tooling
by definition. Open it with O_NONBLOCK: the type check that rejects a FIFO is
unreachable without it, because opening a FIFO for reading blocks in open(2)
until a writer appears -- found by writing the test first and watching it time
out rather than fail.

Count symlinked entries and walk truncation instead of dropping them in
silence. A symlinked cache and a wrong path were producing identical results.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(analyze): rebuild when documents are configured, and report what was read

An AsyncAPI document is external to git freshness in exactly the way an
Actuator snapshot is: replacing one moves no commit and dirties no file. The
option's own README paragraph advertises an absolute cache written by other
tooling, and on the second run of that workflow the already-up-to-date fast
path fired, no document was ever opened, and the previous run's addresses were
served as current. Measured, not reasoned: editing a document and re-running
printed "Already up to date" and left the old address in the graph; with this
change the same probe re-reads and the new address replaces it.

So an enabled run forces a rebuild and dropping the option forces one more, to
clear document-derived evidence -- the treatment `springActuatorPath` already
gets, for the same reason. Only the FLAG is recorded in index metadata, not
the path: Actuator retains its inputs so future scans keep excluding them,
whereas a committed document is deliberately NOT excluded (it wants its real
`File` node), so there is nothing to retain and recording the path would put
an operator's directory layout into metadata for no consumer.

That also settles a defect it would have been tempting to patch separately. A
synthetic `File` node for an out-of-tree document carries a path that is in no
write set and is not covered by `isGraphWideNode`, so an incremental writeback
dropped the node while keeping its edges -- which then COPY against a row that
was never written, and fail into an IGNORE_ERRORS retry that reports success.
A forced rebuild has no incremental subgraph to get that wrong.

Distinguish the two meanings of `resolution: 'specification'`. That value
belongs to the address cascade and means a CODE candidate was resolved through
the step-4 hook; a node minted from a document has no code site and now says
`asyncapi-document`. Reusing one string would leave a query that groups by
provenance unable to separate an address a document states from one a document
was used to resolve, and only the second is a claim about source.

Report what was read. The stats block was justified on the grounds that an
operator must be able to tell a mistyped directory from a repository with no
documents -- and nothing surfaced it, so the justification was aspirational. A
configured path that yields nothing, or a walk that hit a bound, now warns
unconditionally, as `spring-auto-configuration.ts` does for the same class of
input. The phase summary carries the refusal breakdown rather than only the
totals, because the unresolved fraction is the number this work is judged on
and a bare count says how big the gap is without saying what would close it.

Tests for the three wiring lines that were individually deletable with a green
suite, following the templates already in the repository: a row in the
`--watch` rejection table, the CLI-threading assertion beside the Actuator
one, and the shipped-skill fragment that pins the flag in all three copies.
Also pin `filePath: ''` on a spec-minted destination -- the half of the keying
rule that stops a shared node becoming collateral damage of one document's
next change -- and the in-repo `File` branch, which was dead-code-able.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(ingestion): close the join-forging paths a second review round found

The `$ref` exclusion added last round fixed one instance of a class and left
the class open. A `bindings` map key of `x-scs-function` -- an ordinary
Specification Extension, which generators emit -- still became the broker, so
two unrelated services carrying one vendor annotation and one address landed
on ONE node whose broker half said nothing about any broker. And
`{ kafka: {}, x-internal: {} }` read as two brokers, losing a conformant
document and reporting it as self-contradictory, which also made any document
author a one-line saboteur of their own cross-service links.

So the two readers are now separate functions with opposite defaults, and the
header says why they must be. `servers[].protocol` is a FIELD DECLARED to hold
a protocol: an unrecognized value there is the document's own claim and passes
through, because refusing it would lose a destination the document states
plainly. A `bindings` MAP KEY is not that -- the specification puts `$ref` and
`x-` in the same namespace -- so a non-protocol key is the EXPECTED case and
only AsyncAPI's binding vocabulary may answer. The syntactic test that was
applied to both was the right rule for one of them.

The walk fix from last round introduced something worse than it reported. A
shared abort flag meant depth exhaustion in ONE branch terminated the whole
traversal, so ten good documents beside a twelve-deep unrelated subtree were
kept or lost depending on whether that subtree sorted before or after them.
Truncation and budget-exhaustion are now separate: depth returns from its own
branch, and only a genuinely global bound stops the walk.

Rewriting `protocol.ts` dropped the whitespace check from the server-protocol
path and made the node-key collision reachable again. The test written for
that collision last round caught it within the minute; the comment now records
that it was learned twice.

Everything else measured this round:

- The broker is the THIRD string that reaches a graph identifier, and it was
  unbounded while the header claimed there were two. A one-megabyte protocol in
  a document satisfying every other cap was measured producing a gigabyte of
  resident identifier strings, because `generateId` concatenates rather than
  hashes and the phase mints one id per node and per edge.
- The run-wide operation budget counted ACCEPTED operations, reproducing at the
  run level the exact defect the per-document cap was corrected for last round:
  a run whose every operation is refused never decrements it. Both now count
  operations EXAMINED, and `operation-cap` sets `truncated` -- it is a bound
  that stopped the operation count, which is what that flag is documented to
  mean.
- The channel-inherits-all-servers rule ran per operation. Hoisted: it depends
  only on the servers.
- A subdirectory that cannot be listed is counted rather than dropped, so a
  mixed-permission cache cannot report a clean, complete read.
- The read LOOPS, like the Actuator reader this claims to follow. A single read
  was never short across seven hundred probes on APFS, but POSIX permits it and
  FUSE mounts with `direct_io` -- the deployment this option targets -- return
  short counts. A document truncated at a line boundary still parses, so the
  failure is silent: operations vanish with `refusals: {}`.
- `parameters: {}` no longer refuses a literal address; an empty container
  states nothing and generators emit them.
- A channel that is itself a Reference Object gets its own reason instead of
  `no-address`, which was telling operators their documents omit addresses when
  the reader simply stops one hop short.
- A multi-protocol document resolves from its operation's own bindings; only
  when those are silent does an inherited multi-protocol server set refuse, and
  under `ambiguous-server-default` rather than a reason that says the document
  contradicts itself. It does not.
- HTTP and WebSocket are refused for destination minting. For a broker the
  topic is the namespace; for HTTP the host is, so keying on the path alone
  would make every service exposing `/events` one node. A `Route` already
  models an HTTP endpoint, with its method in the key.
- The sniff window is a parse gate, not a read gate, and four kilobytes refused
  a good document behind a licence header.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(ingestion): pin the wiring and the reporting that were deletable

Three lines could be deleted with the whole suite green, and each of them
makes the feature partly or wholly inert: the forward from `run-analyze` into
`PipelineOptions`, the forced rebuild while documents are configured, and the
cleanup rebuild when the option is dropped. None is visible one layer up,
where the CLI test asserts on a mock's arguments.

One integration test closes all three. It drives the real `runFullAnalysis`
against a real repository and asserts, in order: the enabled run does not take
the up-to-date fast path and logs the rebuild; the destination reaches the
graph, which only happens if the option is forwarded; a document edited with
the tree clean and the commit unchanged is re-read; dropping the option
rebuilds once and removes the document-derived evidence; and the run after
that is up to date again -- the "rebuilds once" half, which rests on the
metadata being written as a fresh literal rather than merged, and which
nothing pinned.

The document lives OUTSIDE the repository on purpose. That is the workflow the
option is documented for, and it is the only one where the hazard exists:
editing a tracked file dirties the tree and forces a rebuild anyway, so an
in-repo fixture would pass with the freshness fix reverted. Verified by
reverting both: deleting the forward fails on the empty destination list,
deleting the forced rebuild fails on the missing log line.

Also pinned, each because deleting the code it covers left the suite green:
the `parameters` half of the templated-address refusal (its old test supplied
a braced address too, so the `{` half alone satisfied it); the phase actually
forwarding `symlinksSkipped`; the unconditional warning, whose whole argument
is that a tally nobody can see is not a tally -- captured through the
repository's own `_captureLogger`; a `.yml` document; a character device,
which is the case the `isFile` check exists for and which the FIFO test does
not reach; and the bound that stops a walk.

Reject an empty `--asyncapi-spec` at the CLI. It resolved to the repository
root and walked the whole tree, defeating this module's own rule that there is
no glob-based auto-discovery -- and the HTTP entry point already rejected the
identical value. Two doors onto one option must not hold different rules.

Surface the flag in the MCP context resource beside `spring_actuator`. It
matters more there than for its neighbour: Actuator annotates nodes the source
pass already found, while document reading mints destinations and edges with
no code site, and nothing said where they came from.

Log the configured path relative to the repository. The same change refuses to
persist that path to index metadata because it would record an operator's
directory layout; holding that rule for metadata and not for logs was holding
it in one place.

Both test files now clean up their temporary directories.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* style(ingestion): apply the repository's prettier contract

`quality / format` runs `npx prettier --check .`, and three files added by this
branch were not formatted to it. No behaviour changes: the reader's line
breaks and two test literals move, nothing else.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(ingestion): release the mini-repo handle the document test allocated

`setupMiniRepo` documents that the caller owns cleanup, and every other test
in this file calls `repo.cleanup()` in its `finally`. The AsyncAPI document
test removed only the document directory, so each run left a temporary
repository behind.

The two owners are separate on purpose: the document directory is a SIBLING of
the repository, placed outside the working tree so that editing it cannot
dirty the tree and force a rebuild on its own. The repo's cleanup therefore
does not reach it, and both calls belong in the same block.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(ingestion): stop partial server evidence from reading as unanimous

Six review findings, every one a way this reader could name a broker the
document does not name. They share a shape: something is DROPPED rather than
refused, the remaining evidence agrees with itself, and an operation is
attributed with confidence to a broker its document never settled on. A wrong
broker is half a join key, so it does not produce a missing edge -- it produces
an edge to a stranger, reported as a fact.

CAPPED SERVER MAPS. A channel with no `servers` inherits all of them, and that
map is capped at 1,000. A document whose first thousand servers are Kafka and
whose thousand-and-first is JMS read as unanimously Kafka, because unanimity
was tested on the slice. Counted `server-cap` and set `truncated`, but neither
stopped the attribution. The inherited path now refuses under
`capped-server-default` -- checked BEFORE agreement, since a subset agrees with
itself for free.

ROOT SERVER REFERENCE OBJECTS. The Servers Object patterned field is
`Server Object | Reference Object`, so `{ $ref: '#/components/servers/prod' }`
is conformant. Reading `protocol` off the raw value dropped every one: an
all-reference document had no protocol at all, and -- worse -- a MIXED set lost
its disagreeing half and became unanimous. One hop is now followed, through
`#/servers` and `#/components/servers`; anything else is refused under
`unresolved-server-reference` rather than skipped.

CHANNEL BINDINGS. Only the operation's bindings were read. A conformant channel
carrying `bindings: { kafka: {} }` with no operation binding was dropped as
`protocol-unknown` while the document said plainly which broker it meant, and a
disagreement between the two levels was invisible. Both are read; a conflict is
`protocol-disagreement`.

EMPTY `servers`. "If `servers` is absent or empty, this channel MUST be
available on all the servers defined in the Servers Object" -- one sentence,
both cases. A zero-iteration loop returned `explicit: true`, which blocked the
inherited fallback and dropped valid operations.

POINTER DECODING ORDER. RFC 6901 percent-decodes the fragment BEFORE splitting
on `/`. The raw token was tested for a separator first, so `#/channels/orders%2Fv1`
passed a check it should have failed and then decoded into two segments -- a
pointer addressing `channels.orders.v1` was read as a channel named `orders/v1`,
inventing a channel the document never declared. A malformed escape is now
refused rather than resolved against its undecoded text. `~1` still resolves; it
is the pointer's own escape and belongs after segmentation.

THE SNIFF WINDOW. A fixed window decides by where the root key sits rather than
whether it is there, so every window is a false negative waiting for a longer
preamble -- 4 KiB was replaced by 64 KiB for that reason and inherited the same
defect. The whole text is scanned; it is already bounded and already in memory,
and the gate exists to skip the PARSE, which is the expensive half. A leading
UTF-8 BOM is stripped before both sniff and parse.

Twelve of the fourteen new tests were run against the unfixed reader and all
twelve failed; the other two are controls that must pass either way.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* refactor(ingestion): simplify AsyncAPI pointer and binding resolution

Decode each $ref once, union binding evidence, and stop walking capped
server maps whose brokers are unused on the inherit path.

Co-authored-by: Cursor <cursoragent@cursor.com>

---------

Co-authored-by: Claude Opus 5 (1M context) <noreply@anthropic.com>
Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
2026-09-02 22:01:15 +00:00
Yayler
3aa62be717
feat: add gitnexus auto-sync for scheduled remote clone and analyze (#2493)
* adds an opt-in auto sync and analysis loop for GitNexus

* adds an opt-in auto sync and analysis loop for GitNexus,gitnexus watch [init|start|restart|stop|status]

* adds an opt-in auto sync and analysis loop for GitNexus,gitnexus watch [init|start|restart|stop|status]

* fix: address PR review cleanup

* Prettier code style

* merge main

* fix(watch): protect local repos and cancel active analysis

* fix(watch): harden auto-sync lifecycle and locking

- validate watch process identity before lifecycle operations\n- serialize registry, analysis, and LadybugDB access with recoverable locks\n- harden clone paths, symlinks, hooks, quarantine, and worker timeouts\n- install procps in the CLI image for reliable Docker watch control\n- add focused regression coverage for lifecycle, locks, clone, and registry behavior

* update agents & claude md

* merge main

* fix(watch): harden auto-sync lifecycle

* fix(watch): normalize SSH repo identity paths

* fix(watch): normalize SSH repo identity paths

* fix(watch): safely cancel analysis across platforms

* fix(auto-sync): close worker and group sync failure paths

* fix(auto-sync): drop retired allowStale from group sync

allowStale was removed from SyncOptions, which broke typecheck and CI on this PR.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(watch): satisfy prefer-const and Prettier in auto-sync

The watch timers are assigned exactly once, so prefer-const rejected the
deferred `let` declarations. They are only read from `stop()` and the control
poll, both of which run after the assignments, so binding them at creation is
safe and drops the now-dead undefined guards.

Remaining files are formatting only.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(watch): make lock identity absolute and stop three fail-open paths

Lock owner identity was rendered by `ps -o lstart=` through localtime and the
active locale, so the same live process produced a different string under a
different TZ. A mismatch reads as PID reuse, so one daemon could reclaim a
mutex another still held. Pin TZ=UTC and LC_ALL=C.

The owner record also carried no hostname, so a holder on another machine was
judged by this kernel's view of its PID — always "stale" — and its lock stolen
whenever GITNEXUS_HOME is a shared volume. Record and compare the hostname, as
the index lock already does.

Ownership verification threw unconditionally on win32, which is reached once
per project per tick, so watch reported `running` and then failed every repo
forever. POSIX uid/mode cannot be checked there; skip those two assertions and
keep the dangerous-root, symlink, containment and internal-root guards.

Also: quarantine sweep now refuses a symlinked root instead of deleting
through it; an unreadable state file propagates instead of being rewritten as
empty state, which used to erase every repo's analyzed commit and failure
count; a failed staging cleanup no longer strands a published lock with no
release handle; and the concurrency runner settles every worker before
surfacing a failure so cancellation cannot orphan a live analyze fork.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(watch): land the deferred review findings

Six findings that were deferred from the review backlog, plus the docs they
change.

Worker heap: admission allowed `floor(availableMemoryGB / 2)` slots while every
fork was handed the whole machine's heap cap, so the budget meant nothing as
soon as an operator raised max_concurrency. Divide the cap by the repos
actually analyzed in parallel. The default single-project path is unchanged.

Registration: the parent registered without a branch, so it always took the
primary/flat arm and relabelled a pinned branch entry on the branch-fallback
path. Reproduce the worker's own resolveBranchPlacement decision instead.

Cancellation: requestCancellation cleared the only timer and settled nothing,
so a worker wedged past its safe point left the promise pending forever,
wedging activeRun and hanging `watch stop`. Add a 5s grace after which the
parent stops waiting and releases the IPC channel's hold on its event loop.
The child is still never killed — it may be inside native work.

overwrite_local_changes: `checkout --force` rewrites tracked files only, so
untracked sources survived and were indexed as if they came from the remote.
`git clean -fd -e /.gitnexus` after checkout; no -x/-X, so ignored paths and
GitNexus's own storage survive.

Quarantine: age alone never bounds a repo that fails every tick, since each
partial clone is younger than the retention window. Keep the five newest per
repo.

Validation: repo_git_timeout is now bounded by the lesser of an hour and the
sync interval, which is also the guard for the bare-number-means-seconds slip
(`600000` meant ~7 days and cleared the timer ceiling). And the remote URL's
final segment is validated at config load rather than failing once per tick
inside the sync loop.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(watch): release an errored worker, and stop rejecting dotted repo names

Three findings from the latest review pass.

The 'error' handler settles immediately rather than waiting out the grace, so
cleanup() clears the grace timer that would otherwise have released the child.
An errored IPC channel does not mean the worker stopped, so release it on that
path too — still no kill.

The traversal guard tested the raw path for '..', which also rejected an
ordinary name like owner/foo..bar that the repository-name rule accepts.
Traversal is a whole segment, so test segments.

The heap-cap test left two runs and their real timers pending; it now stubs
timers and settles both promises. Registration coverage now pins the branch
slot rather than leaving it implicit.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(watch): validate namespace segments and pin the stopped process identity

Replacing the raw-string `..` test with a per-segment one dropped a guard: a
segment like `..\..\outside` is not literally `..`, so it passed, and those
segments build the clone path — on Windows the backslashes are separators.
Hold every namespace segment to the same charset as the repo name, which keeps
a separator out of a segment while still allowing an ordinary `foo..bar`. The
final segment keeps its own check so a bad repo name keeps its own message.

The stop wait polled liveness by pid alone, so a pid reused mid-wait would
have it wait on an unrelated process and then report the watch stopped. Compare
the process start time recorded for the owner, which also returns sooner.

Registration now omits `branch` for a primary index instead of passing it as
undefined, so that call keeps the shape it had before this branch.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(cli): ship auto-sync as the remote daemon, reserve gitnexus watch.

Keep analyze --watch for local incremental re-index and stop the top-level watch verb from starting a clone/pull loop.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(auto-sync): reject invalid branch refs and verify status identity (#2493)

Reject leading slashes and per-component trailing dots in configured branches, and verify the live watch owner before trusting a stored error status.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(auto-sync): reject ownerIds that can escape the watch directory (#2493)

Stop interpolating a tampered ownerId into the stop-request filename; only basename-safe values are treated as owners.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(auto-sync): recognize auto-sync in the watch-process identity check (#2493)

Stop/status were still looking for a standalone watch token after the command rename, so a live gitnexus auto-sync start process would be refused as unrelated.

Co-authored-by: Cursor <cursoragent@cursor.com>

* chore(autofix): apply prettier + eslint fixes via /autofix command

* fix(auto-sync): reject boolean max_concurrency instead of coercing it to 1 (#2493)

Number(true) is 1, so a YAML boolean would have passed the integer check and silently meant one worker.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(auto-sync): swallow status errors in the watch finally path (#2493)

An uncaught updateStatus rejection in finally became an unhandled
rejection. Skip the clone-root symlink test on Windows, where directory
symlinks need privileges. Align the group-lock comment with fail-closed
registry timeouts.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(auto-sync): catch cancelling status-write failures (#2493)

Fire-and-forget updateStatus('cancelling') could become an unhandled
rejection, the same class as the finally-path status write.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(auto-sync): ignore queued interval ticks after stop (#2493)

clearInterval does not cancel a timer callback already queued. Guard
runSafely on stopping so shutdown cannot start a new un-cancellable run.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(auto-sync): report stored watch status timestamps (#2493)

status should show when the watch last entered a state, not when the
CLI queried it. The failure-count test still expects 1 after a new
commit resets the streak; rename it so that reset is explicit.

Co-authored-by: Cursor <cursoragent@cursor.com>

* style(auto-sync): apply prettier to starter status logger (#2493)

Co-authored-by: Cursor <cursoragent@cursor.com>

---------

Co-authored-by: weiyf <weiyf3634@163.com>
Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
2026-09-02 19:40:18 +01:00
Kevin Rajan
5e6b79deba
fix(cli): do not call zero-symbol detect-changes a clean tree (#3138)
* fix(cli): do not call zero-symbol detect-changes a clean tree

Print backend summary.message and distinguish a parsed diff with no overlapping indexed symbols from an empty git diff. Pin --color=never so color.ui=always cannot hide +++ b/ headers.

* fix(cli): localize clean-tree detect-changes and skip no-overlap when partial

Production empty diffs carry English summary.message; route that through t() so zh-CN fires. Do not claim no indexed-symbol overlap on queryDegraded partial results. Pin formatter tests to en and cover the production payload shapes.

* fix(cli): prettier detect-changes-format and degraded eval assertion

---------

Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
2026-09-02 18:59:53 +01:00
Gergő Magyar
52924ef12c
perf(emit): drop six equivalent redundancies on Java-scale index path (#3129)
* perf(scope): reuse deferred sites and signatures for callable-value-flow

Pass the Phase 4 deferred-site collection and signature map into emitCallableValueFlow so the emit path does not rescan the same call sites.

Co-authored-by: Cursor <cursoragent@cursor.com>

* perf(ingestion): nest owner registries instead of composite string keys

Look up methods, fields, and nested types via Map<owner, Map<name, defs>> while keeping EMPTY identity and TypeRegistry miss [] semantics.

Co-authored-by: Cursor <cursoragent@cursor.com>

* perf(scope): memoize resolveDefGraphId per nodeLookup

Cache graph ids on a WeakMap keyed by lookup identity so heritage rebuild invalidates, with an env opt-out that skips the cache.

Co-authored-by: Cursor <cursoragent@cursor.com>

* perf(csv): prepare file content once and LRU-touch via Map order

Cache split lines and binary flags per source file so snippet and FTS extraction do not re-scan the same bytes.

Co-authored-by: Cursor <cursoragent@cursor.com>

* perf(identity): allow in-process cache guards only when opted in or unwritable

Keep the ≥128-guard subprocess default on writable installs; use direct snapshots when the env flag is set or W_OK fails on the analyzer tree.

Co-authored-by: Cursor <cursoragent@cursor.com>

* refactor: share empty CSV payload and restore spacing after memo key (U4, U3)

Co-authored-by: Cursor <cursoragent@cursor.com>

* test(scope): assert resolveDefGraphId memo skips a second lookup walk

The ID-equality checks still passed with the memo disabled. Count Map#get on the lookup so a repeat call must hit the WeakMap cache. Also apply prettier on the remaining emit-path files CI flagged.

Co-authored-by: Cursor <cursoragent@cursor.com>

* test: pin identity W_OK probes and memo env isolation

Co-authored-by: Cursor <cursoragent@cursor.com>

* docs: document emit-path env knobs and fix registry headers

CONTRIBUTING requires README rows for new GITNEXUS_* variables; also drop stale owner\0name comments after the nested-map change.

---------

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
2026-09-01 11:22:55 +00:00
Gergő Magyar
a82362765c
fix: stop analyze from clobbering customized GitNexus skills (#3124)
* fix: preserve customized SKILL.md files during analyze

Skip overwriting standard GitNexus skill files when they already differ from the bundled template, and keep divergent nested leftovers instead of deleting them.

Fixes #3080

Co-authored-by: Cursor <cursoragent@cursor.com>

* docs: note --skip-agents-md does not skip skills

Point operators at --skip-skills so the AGENTS/CLAUDE skip flag is not mistaken for a full agent-file freeze.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(review): treat unreadable SKILL.md as an error, not missing

Only ENOENT counts as absent so EACCES cannot fall through to recursive rm. Strengthen the skipSkills nested leftover test with a bundle-identical file that install would otherwise delete.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(ci): prettier-format ai-context unit tests

Co-authored-by: Cursor <cursoragent@cursor.com>

* docs: clarify --skip-agents-md vs community --skills

Co-authored-by: Cursor <cursoragent@cursor.com>

* test: pin GITNEXUS_LANG=en for skip-agents-md help assertions

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix: preserve customized skills in analyze summaries and setup

Report preserved vs written skills, keep leftover nested directories that
contain extra files, and skip setup overwrite of divergent SKILL.md.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Address PR review feedback (#3124)

Preserve operator-edited files inside directory skills during setup, and
restore GITNEXUS_TEST_SKILLS_ROOT after the Antigravity skill tests.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Address PR review feedback (#3124)

Copy directory-skill companions even when SKILL.md is customized, while
still skipping files whose bytes already differ from the bundle.

Co-authored-by: Cursor <cursoragent@cursor.com>

---------

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
2026-09-01 09:56:48 +00:00
Gergő Magyar
9f82ffd6bf
fix: MUST graph tools on structural reads in generated agent block (#3125)
* fix: add a read-path MUST so generated agent blocks invoke GitNexus on structural questions

The managed Always-Do list gated every MUST on edit/commit/rename, so read-only sessions had no reason to call query, context, or impact. Replace the advisory Explore/Use bullets and keep the #2059 call shapes.

Fixes #3076

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(review): assert pdg_query, Spring Actuator, and Explore/Use absence

Co-authored-by: Cursor <cursoragent@cursor.com>

* style: prettier-wrap read-path MUST unit assertions

CI quality/format failed on the two test files that grew beyond printWidth.

Co-authored-by: Cursor <cursoragent@cursor.com>

* Address PR review feedback (#3125)

- Assert the read-path MUST bullet is immediately followed by the Spring Actuator Always-Do line, not merely that both substrings exist.

Co-authored-by: Cursor <cursoragent@cursor.com>

* test: pin the read-path MUST to Always-Do so CI cannot miss a move

The previous floor and whole-block toContain still passed if the MUST left Always-Do while pdg_query kept the count. Own-line and ungated-length asserts close that hole.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix: pick graph tools by question type and require graph-first reads

Co-authored-by: Cursor <cursoragent@cursor.com>

---------

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
2026-09-01 09:03:08 +00:00
MyShining
c217a0f257
feat(spring): import optional Actuator runtime data with Kotlin JVM mapping (#3107) 2026-09-01 06:22:38 +01:00
FenjuFu
dc5c816a02
fix(serve): protect MCP route with optional bearer auth (#3100)
* fix(serve): protect MCP route with optional bearer auth

Signed-off-by: FenjuFu <92919259+FenjuFu@users.noreply.github.com>

* fix(serve): clarify MCP auth proxy boundaries

Document the Render token incompatibility, expose serve auth in CLI help, and replace source-order assertions with live middleware coverage.

Note: full test suite has pre-existing worktree failures because generated parse-worker.js is absent; targeted auth and proxy suites pass.
Co-authored-by: Cursor <cursoragent@cursor.com>

* chore(docs): preserve existing table formatting

Keep the auth clarifications focused without reformatting unrelated Markdown tables.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(proxy): inject backend MCP credentials

Replace the consumed edge credential with the configured protocol token only for MCP routes so proxied serve authentication remains composable.

Co-authored-by: Cursor <cursoragent@cursor.com>

---------

Signed-off-by: FenjuFu <92919259+FenjuFu@users.noreply.github.com>
Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
2026-08-30 17:12:46 +01:00
Gergő Magyar
7e993ab897
fix(group): fail ambiguous sync names and honor analyze --name (#3094)
* fix(group): fail sync when a member name is ambiguous

Silent first-match bound the wrong clone when --allow-duplicate-name
registered two paths under one alias. Refs #3028.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(analyze): apply --name on the already-up-to-date path

A rename should not require --force when the index is already current.
Register before the same-commit branch restamp. Refs #3028.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(group): hint member path when impact --repo is an alias

$localRepo stays the yaml key; joining on the registry alias is a
non-join. List matching keys so operators can retry. Refs #3028.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(group): keep injected sync and alias hints consistent

Workspace-deps path maps reuse the resolved handle so duplicate names
cannot throw after an injected resolver. Alias hints match case-insensitively.

Co-authored-by: Cursor <cursoragent@cursor.com>

---------

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
2026-08-29 21:48:46 +00:00
Gergő Magyar
170eefd4a0
fix(status): judge freshness by covered files, not a dirty working tree (#3083)
`gitnexus status` reported "stale (re-run gitnexus analyze)" whenever the
working tree held any modified or untracked file, including files the index
never reads. Because `analyze` cannot commit, stash or delete such a file,
the remedy it prescribed could not clear the verdict — the only way back to
up-to-date was to remove the file.

`meta.fileHashes` already records the exact set of files a run covered, so
answer the question directly: compare those hashes against disk, reusing
analyze's own scan, hash and diff helpers so the two cannot disagree about
what "changed" means. A new coverable file still counts as stale (the index
is genuinely incomplete then), but one `analyze` now settles it. The
repo-wide dirty flag survives only as the fallback for metadata written
before `fileHashes` existed.

Both freshness checks now read GitNexus's own analyze output (AGENTS.md,
CLAUDE.md, the agent skill mirrors) from one shared list. They previously
held separate copies, and since analyze rewrites those files after
recording hashes, a per-file comparison that missed them would report a
freshly indexed repository as permanently stale.

Closes #3077

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
2026-08-29 12:56:41 +00:00
Gergő Magyar
54f97c86c7
fix(impact): make File risk comparable via shared axes (#3075) (#3082)
* docs(plans): add impact file risk plan

Capture the evidence, constraints, and verification path for fixing incomparable File and symbol impact risk.

Co-authored-by: Cursor <cursoragent@cursor.com>

* refactor(impact): centralize risk scoring

Keep the existing thresholds in one shared scorer and expose a common-axis comparison for targets with unavailable enrichment axes.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(impact): expose incomparable file risk scale

Mark File impact results when process and module axes are unavailable, and provide a common-axis score for honest cross-kind comparisons.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(impact): explain cross-kind risk comparisons

Surface the common-axis score in CLI and agent guidance while reusing the shared threshold ladder in the web impact tool.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(impact): fail closed when enrichment is incomplete

Preserve proved HIGH/CRITICAL process counts, treat failed queries as UNKNOWN, and surface riskScale metadata on MCP, group, CLI, and Graph-RAG File walks.

Co-authored-by: Cursor <cursoragent@cursor.com>

---------

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
2026-08-29 11:58:15 +00:00
azizur100389
bf7dcf98ca
feat(analyze): add incremental watch mode (#3072)
* feat(analyze): add incremental watch mode

* fix(watch): harden control file reads

* fix(watch): contain refresh errors and bound reads

* fix(watch): stream strict control file reads

* fix(watch): harden refresh recovery and lifecycle

* fix(watch): report ignored repository defaults

* fix(analyze): preserve signal exit semantics

* style(analyze): format signal exit helper

* test(config): exercise descriptor growth guard

* test(watch): await source event before rename

* fix(watch): keep live-index retries honest and ignore analyzer writes

Hold retry backoff when events merge, stop only after a live-index mutation, skip .gitnexus self-writes, and reject the remaining one-shot watch flags. Export impact-risk scoring from gitnexus-shared so consumers can share the same scale.

Co-authored-by: Cursor <cursoragent@cursor.com>

* fix(watch): contain queue edge cases after review

Preserve overflow-only refreshes, contain synchronous refresh failures, and mark successful atomic publication before later operations can fail.

Co-authored-by: Cursor <cursoragent@cursor.com>

---------

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Cursor <cursoragent@cursor.com>
Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
2026-08-29 10:40:56 +00:00
John R. Eakin
38a0837e4b
feat(wiki): add grok local CLI provider (#3069)
* feat(wiki): add grok local CLI provider

Wiki generation can use `gitnexus wiki --provider grok` to spawn the
authenticated Grok Build CLI (`grok --prompt-file`) instead of an HTTP API key.

* style(wiki): prettier grok-client for CI format check

CI quality/format failed on grok-client.ts. Auto-format matches repo prettier so the GitNexus /autofix comment is applied locally.

* Update Grok CLI configuration to use empty allowlist and increase max tu

* Replace Grok tool allowlist with explicit denylist and strict sandbox

* Increase Grok max turns to 15 to accommodate prompt variance

* chore(wiki): drop Unreleased CHANGELOG hunk and restore lockfile libc selectors

Feature PRs do not own CHANGELOG.md. Restore the 16 libc platform selectors
deleted from package-lock.json with no dependency change.

* fix(wiki): resolve grok CLI through Windows cmd.exe shims

Extract resolveWindowsCliCommand from the local CLI client and use it for
grok detect/spawn so npm .cmd installs work without a shell. Keep
detectGrokCLI() returning the display name for the wiki menu.

* fix(wiki): wait for grok child close before timeout cleanup

Do not reject the grok spawn promise on the timeout timer. Kill the child,
escalate SIGKILL after 2s, and reject only on close (or a second 2s hard
deadline) so callGrokLLM cannot rm the sandbox while the process is alive.

* fix(wiki): reject incomplete grok stopReason and distinct parse errors

Honor JSON stopReason (end_turn or omitted succeeds; anything else throws).
Split empty-output / non-JSON / missing-text messages and include a truncated
stdout excerpt. Drop unused GrokConfig.workingDirectory.

* fix(wiki): keep grok temp dir on hung timeout and ignore stdin

Hard-deadline reject no longer removes --cwd while the child may still
be running. Spawn stdin is ignored so grok's unused pipe cannot EPIPE
the wiki process.

Co-Authored-By: Grok 4.6 <grok4.6@x.ai>

* fix(wiki): require grok stopReason=end_turn for a finished page

Live grok 1.0.5 with wiki spawn flags returns stopReason end_turn.
Omitted, null, or empty stopReason is no longer treated as success, so
generateLeafPage cannot write a page that never completed.

Co-Authored-By: Grok 4.6 <grok4.6@x.ai>

* style(wiki): deslop grok parse nesting and extra comments

Flatten parseGrokOutput with early returns and drop narrative comments
that restated the timeout/stdin/stopReason constraints. Behavior unchanged.

Co-Authored-By: Grok 4.6 <grok4.6@x.ai>

* test(wiki): make grok Windows spawn tests match real cmd.exe

On Windows CI, detectGrokCLI also calls where.exe, ComSpec is an
absolute cmd.exe path, and waitForSpawn must wait for real fs I/O.

Co-Authored-By: Grok 4.6 <grok4.6@x.ai>

* test(wiki): expect taskkill on Windows grok timeout, not child.kill

killChildTree uses taskkill /T /F on win32 and only falls back to
child.kill() if that fails.

Co-Authored-By: Grok 4.6 <grok4.6@x.ai>

* test(wiki): remove grok temp dir after hard-deadline leak assertion

The hard-deadline test must keep the dir until close, then emit close so
late cleanup runs and the temp directory is not left behind.

Co-Authored-By: Grok 4.6 <grok4.6@x.ai>

* test(wiki): wait for grok temp dir rm after late close

Windows CI failed the hard-deadline test because 30 setImmediate ticks
cannot observe fire-and-forget fs.rm. Poll with real timers after close.

---------

Co-authored-by: Grok 4.6 <grok4.6@x.ai>
2026-08-29 08:46:30 +01:00
DuduPhudu
0f793558ad
fix(group)!: stop group sync claiming matching it never did (#3020)
* fix(group)!: remove the matching cascade that was advertised but never built

`gitnexus group create` wrote `matching.bm25_threshold` and
`matching.embedding_threshold` into every generated group.yaml, and no matcher
ever read either one. That was not the whole of it — an entire feature surface
described a BM25/embedding cascade that does not exist:

- `matching.bm25_threshold` / `matching.embedding_threshold` — parsed, persisted,
  unread
- `detect.embedding_fallback` — defaulted and templated, unread
- `MatchType` declared `'bm25' | 'embedding'`; both variants unreachable
- `SyncOptions.skipEmbeddings` — declared in sync.ts and never read
- `gitnexus group sync --skip-embeddings` — accepted, threaded through
  GroupService, ignored
- CLI help in en and zh-CN promised "Exact + BM25 only (no embedding fallback)"
- the MCP `group_sync` schema exposed `skipEmbeddings`, described as
  "Exact + BM25 only (Demo PR: same as default exact path)"

`sync.ts` imports exactly `buildProviderIndex`, `runExactMatch` and
`runWildcardMatch`, and the printed cascade has one stage. An operator whose
links do not match reaches for those thresholds first, and turning either knob
changes nothing — config that silently does nothing is how people conclude a
feature is broken.

Evidence that the cascade should be deleted rather than implemented, from a real
backend/frontend pair: of 165 consumer contracts, 149 link exactly and 16 do not.
Nine of the sixteen are third-party APIs (Google OAuth, Apple public keys,
PostHog, image annotation) with no in-group provider by construction — similarity
matching cannot recover them, it can only invent false links. Two are verb
mismatches: the frontend calls `POST /links` and `GET /links/check-exists` while
the backend declares `GET /links` and eleven other `/links/*` routes but neither
of those, so a fuzzy path match would link a POST consumer to a GET provider. The
rest are path-extraction artifacts. Roughly none of the sixteen would be
correctly recovered, and several would be actively mis-linked.

BREAKING CHANGE: `gitnexus group sync --skip-embeddings` and the MCP `group_sync`
`skipEmbeddings` parameter are removed. Both were accepted and ignored, so no
behavior changes — but a script passing the flag now fails with `unknown option`
instead of being silently misled. Existing group.yaml files keep loading: the
removed keys are simply no longer part of the schema, and a regression test pins
that a legacy config carrying all three still parses.

Closes #3006

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group)!: honour --exact-only, drop inert --allow-stale, report every matching stage

Addresses the review findings on #3020, all of which are the same defect the PR
itself is about: group-sync surface that describes behaviour the pipeline does
not have.

`exactOnly` was inert in exactly the way `skipEmbeddings` was — declared on
`SyncOptions`, threaded through the CLI and the MCP tool, and read by nothing —
and strictly worse, because the stage it promised to suppress DOES run and DOES
write `matchType:'wildcard'` links into contracts.json and the bridge, which
`group impact` and cross-repo `trace` then traverse. It is now honoured rather
than deleted: unlike the never-built BM25/embedding stages, the stage it names
exists, so the flag describes a real choice. The substituted result is
`{ matched: [], remaining: unmatched }`, not an empty result — `wildcard.remaining`
IS `SyncResult.unmatched`, so skipping the stage has to leave its input unmatched
rather than dropping it from the count an operator reads.

`allowStale` had no such stage to gate: `syncGroup` emits no stale warning at any
point (the `checkStaleness` call lives in `groupStatus`, a different path), so it
is removed under the same rationale as `skipEmbeddings`.

`group sync` now prints every matching stage instead of `exact` alone. The old
block printed a `Matching cascade:` header and counted only exact links while the
next line reported `result.crossLinks.length` — which also includes `manifest` and
`wildcard` — so for any group with those the two numbers disagreed with nothing on
screen explaining why. Counting is an exhaustive `Record<MatchType, number>`, so a
new MatchType fails the build here instead of going silently uncounted, and reads
through `?? 0` so a legacy registry carrying a removed matchType prints an honest
count rather than `NaN`.

Also: the MCP `group_sync` description no longer omits the wildcard stage that
always runs, `exactOnly`'s description no longer refers to a "cascade", and
bench/cross-repo-trace/verify.mjs no longer generates the removed threshold keys
into a fresh group.yaml.

Tests: `sync-exact-only.test.ts` pins both directions of the gate (mutation-verified:
removing the gate, or returning `remaining: []`, both go red). `group-tools.test.ts`
pins that the MCP schema dropped `skipEmbeddings` and kept `exactOnly`.
`group-cli.test.ts` pins that both removed flags are rejected, with `--exact-only`
as an accepted-flag control. `config-parser.test.ts` now pins that legacy keys are
PRESERVED (measured, not assumed) rather than only that parsing does not throw.

The type narrowing's fallout in test files is cleared: `tsc -p tsconfig.test.json`
is 987 errors at head against 987 measured on origin/main, with the two error sets
identical — zero net, zero new, zero masked.

Verification: `tsc --noEmit` exit 0; prettier clean; eslint 0 errors (2 warnings,
both pre-existing on base); 69 test files / 1169 tests green across
test/unit/group, test/integration/group, tools, cli-i18n and cli-index-help.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group): reject malformed and retired group_sync parameters (U1)

`GroupService.groupSync` read `exactOnly` off an untyped MCP payload with
`Boolean(params.exactOnly)`. While the flag was inert that coercion was
harmless; now that it gates the wildcard matching stage, the string "false" --
a routine shape for an LLM caller emitting JSON -- is truthy, so a caller that
asked to KEEP wildcard matching got it suppressed and a registry with fewer
cross-links persisted to disk. The opposite of the request, written down.

Validate instead of coercing, at the service boundary: the MCP SDK does not
enforce a tool's advertised inputSchema and `callTool` is reachable directly,
so this method is the real gate. The validator mirrors `validateImpactMode`'s
`{ value } | { error }` shape -- the established idiom for this boundary, and
the one groupSync's other guards already return through.

Also refuse `skipEmbeddings` and `allowStale` by name. The CLI rejects them
outright because commander errors on an unknown option; the MCP path accepted
and silently dropped them, so an agent working from a cached tool schema was
never told. Removing them took away discoverability, not acceptance.

Both guards run before the group is read off disk, so a rejected call performs
no work. Every test asserts the sync did NOT run -- an error string alone
cannot distinguish "refused" from "refused but synced anyway".

The tool description gains the validation note AFTER the registryOutcome
paragraph: `tools.test.ts` slices that description by ordinal position of the
'preserved' / 'superseded' / 'no-prior-registry' literals, so appending past
all three leaves those slices intact (verified, 44/44).

tsc clean; 1039/1039 group unit tests pass.

* fix(group): record the matching stages a sync was told to skip (U2)

An `--exact-only` sync wrote a contracts.json and bridge with fewer cross-links
and nothing recorded that the wildcard stage had been suppressed by request.
`group_impact` and cross-repo `trace` read that registry as authoritative, so a
narrowed graph was indistinguishable from a complete one -- and because
`group_sync` is MCP-exposed, one agent call durably narrowed the shared answer
for every later reader with no signal at all.

Add `suppressedMatchStages` to ContractRegistry and SyncResult, following the
`unreadableRepos` tri-state end to end: absent means a registry written before
the field existed, `[]` is the measurement "this run suppressed nothing", and a
populated list names the stages. The writer always emits it, because omitting
the empty case is what made "measured, none" unreachable for `unreadableRepos`.

Two properties that are easy to get backwards, and are why the split matters:

- SyncResult carries the marker on EVERY outcome. The sync genuinely did skip
  the stage whatever happened to the file afterwards, and the CLI summary (U3)
  renders from this rather than re-deriving it from the caller's options.
- The PERSISTED registry stamps it only on the `written` outcome. The preserve
  path re-writes `{ ...prior }`, so a carried-forward registry keeps the marker
  of the sync that actually produced its contracts instead of being relabelled
  with this run's request. That holds by construction: the registry literal
  carrying the field is only reachable on the written path.

`loadContractRegistryResilient` gains an explicit line, because it rebuilds the
envelope field by field with no spread of the parsed root -- a new on-disk field
is silently dropped unless named there.

Its reader is `recordedMatchStages`, not the existing `recordedRepoList`: that
one validates `string[]`, which is right for repo names and one notch too weak
here. This repo has already retired MatchType members ('bm25', 'embedding'), so
a stale value on disk is a real shape, and dropping non-members keeps an unknown
stage name from reaching a caller typed as a live one.

Surfaced on `group_contracts` and on `group_sync`'s own return -- deliberately
kept separate from the truncated/truncationReason/riskEpistemic triple. That
triple reports limits a run hit by accident, whose remedy is to fix the repo; a
suppressed stage was asked for, and its remedy is to re-sync without the flag.
Conflating them would tell an agent to retry something that returns identically.

tsc clean; 1043/1043 group unit tests pass.

* fix(group): name a skipped matching stage as skipped, and pin it (U3, U4)

Two facts were printing as the same line. `wildcard: 0 cross-links` meant both
"the stage ran and matched nothing" and "the stage never ran because you passed
--exact-only" -- the same conflation this summary block was introduced to remove
one line up, reintroduced by the flag that made the block necessary.

Render a suppressed stage as `skipped (--exact-only)`, driven by the sync's own
`suppressedMatchStages` rather than by `opts.exactOnly`. The renderer reports
what the sync did, not what the caller asked for, so it stays correct on the
outcomes where the run ended without writing a registry -- which is where the
summary is least legible and a re-derivation from the options would have been
wrong.

Also drops the `?? 0` fallback and the comment justifying it. The comment
claimed a legacy registry could carry a retired matchType into this loop. It
cannot: `syncGroup` returns a freshly computed `crossLinks` array on every
outcome, and even on the preserve path the prior links go to disk while the
fresh array is returned. The code was harmless; the stated reason was false, and
a comment that explains an unreachable path is worse than no comment.

U4 pins both halves through the CLI. A manifest fixture is sufficient: the stage
counts must sum to the total on the `Wrote contracts.json (…)` line, and the
skipped rendering does not need a stage to have matched anything, because
--exact-only records the suppression whatever the fixture holds. That is why
this coverage did not need indexed gRPC/Thrift fixture repos.

Verified by mutation, not assertion: removing the skipped-rendering branch turns
`names a stage it was told to skip as skipped` red and leaves the other 22
green. A control case pins the opposite direction -- the same group without the
flag still reports the stage as zero -- so `skipped` cannot be printed
unconditionally and pass.

U3 and U4 land together: the test has no value without the renderer, so one
commit keeps a revert clean. Both depend on U2, which introduced the field they
read.

tsc clean; 1066/1066 across the group unit and CLI integration suites.

* fix(group): make every description of --exact-only match what it does (U5)

Two descriptions this branch wrote or touched still misstated behavior.

The MCP `exactOnly` description carries "Manifest links still apply." The CLI
help and both locale strings, rewritten in the same commit, omit it -- so the
surface most operators read understated what still runs. Manifest cross-links
are computed before the gate and are genuinely unaffected by the flag, so the
caveat is the accurate half and the CLI now says it too.

The `group_sync` tool description opened with "extract HTTP contracts". That
clause was carried forward byte-identical while only the trailing cross-linking
half was rewritten, and it is wrong: the detect config has six non-HTTP
extraction toggles, and this branch's own new test fixture is Thrift.

`help-i18n.ts` is deliberately untouched. It maps an option to its translation
key and that key already exists; only the commander string and the two locale
values carry text, so a text-only change does not reach it.

The tool-description edit sits ahead of the registryOutcome paragraph, leaving
the relative order of the 'preserved' / 'superseded' / 'no-prior-registry'
literals intact -- `tools.test.ts` slices that description by their positions.

tsc clean; 64/64 across the locale-parity, help-registration, tool-schema and
group-tool suites.

* fix(group)!: remove max_candidates_per_step and shared_libs (U6)

Both keys were declared, defaulted, written into every generated group.yaml,
and read by nothing -- the same three-station dead surface this PR removed for
bm25_threshold, embedding_threshold and detect.embedding_fallback. Every other
DetectConfig field gates a real extractor in sync.ts; shared_libs gates nothing,
because 'lib' contracts come only from the operator-declared manifest extractor.
MatchingConfig reaches matching.ts solely through buildNoisyContractFilter,
which reads exclude_links_paths and exclude_links_param_only_paths and nothing
else.

Existing group.yaml files keep loading and keep their keys. parseGroupConfig
spreads the raw block over its defaults, so a key the schema no longer knows
about survives into the returned config -- which matters because `group add` and
`group remove` round-trip the operator's file through loadGroupConfig ->
yaml.dump -> write, so anything the parser dropped would be deleted from their
checked-in file. The legacy-config test now pins both keys in the same cast form
as its three siblings, and the fixture carries shared_libs so that assertion is
not vacuous.

Two stations that are easy to miss and are swept here:

- gitnexus/bench/cross-repo-trace/verify.mjs GENERATES a fresh group.yaml. It is
  not a preserve-path fixture, so "leave YAML fixtures alone" does not cover it;
  the repo has two generators and both are updated. It is a .mjs file outside
  tsconfig's include, so no type gate would have caught it.
- config-parser.test.ts asserted the removed default at runtime, which vitest
  DOES run. That assertion is gone from the defaults case (the key no longer has
  a default) and re-formed as a preserve assertion in the legacy case.

Verification gate, corrected: "zero net new errors against origin/main" would
have measured the whole branch delta and been red through no fault of this
commit. Measured instead against the branch tip immediately before it --
tsc -p tsconfig.test.json --noEmit reports 989 before and 989 after. Twenty-four
typed-literal sites across ten test files, none of them CI-gated, plus the two
runtime sites above which are.

Note the deliberate side effect: removing a key from the defaults also stops the
group add round-trip from re-adding it to a file that never carried it. Nothing
in src reads either key, so no behavior changes.

BREAKING CHANGE: `matching.max_candidates_per_step` and `detect.shared_libs` are
no longer part of the group.yaml schema and are no longer written into generated
templates. Existing files carrying them continue to parse and retain them.

src tsc clean; 1189/1189 across the group unit, group integration, locale-parity,
help-registration and tool-schema suites.

* docs(group): map PR #3020 review findings to the commits that close them

Retitles the ledger to hold one section per reviewed PR and adds #3020's ten
findings. Two things are stated rather than claimed away: `abda0d041` closes
three findings because they are one code block plus the test that pins it, and
the suppressed-stage marker is a coupled set because the renderer consumes the
field the earlier commit introduces.

Also records what is NOT closed here -- the PR description's false claim about
`max_candidates_per_step` lives outside this branch.

* refactor(group): apply simplify-pass findings

Four cleanup agents (reuse, simplification, efficiency, altitude) over this
run's diff. Efficiency was clean. The rest found five things worth fixing, two
of which were real gaps rather than style.

`recordedMatchStages` filtered unknown values instead of rejecting the list.
That inverted the tri-state on the one field built to prevent exactly this
conflation: a stale `['bm25']` -- the scenario its own comment cites as the
motivation -- survived as `[]`, which on this field MEANS "measured, nothing was
suppressed". A confident clean answer manufactured from a value we could not
read. Now all-or-nothing, matching `recordedRepoList`.

`gitnexus group contracts` showed nothing after an exact-only sync. The human
renderer destructures a fixed field list and gates its incompleteness warning on
`truncated`, so the marker reached the MCP payload and the JSON output but not
the listing an operator actually reads. It now warns, separately from the
`truncated` warning, because the remedies differ: one says fix the repo, this
one says re-run without the flag.

`verbose` was still coerced with `Boolean()` in the same call whose tool
description this branch changed to promise "PARAMETERS ARE VALIDATED". Validated
now, and added to the tool schema -- it was read by the backend and advertised
nowhere.

Reuse: the thrift wildcard-matchable pair existed twice, near-verbatim, in
`sync-exact-only` and `registry-suppressed-stages`. Both now call a shared
`makeWildcardPair` fixture, so the shape `runWildcardMatch` fires on is defined
once.

Simplification: dropped a `Set` built per sync over a list that only ever holds
zero or one entries; iterating `Object.keys(STAGE_COUNTS) as MatchType[]` also
keeps the exhaustiveness the `Record` was built for, which `Object.entries` had
discarded.

Deliberately not done, with reasons: a schema-driven unknown-parameter layer at
the MCP chokepoint (five parameters are read by backends and declared in no
schema, so a strict layer rejects working calls today, and it cannot produce the
"was removed" message finding 3 is about); folding the marker into
`GROUP_IMPACT_TRUNCATION_REASONS` (reverses a recorded plan decision and the
bridge scope is an open question for the maintainer); a per-stage suppression
cause `Record` (no second suppressor exists -- speculative); collapsing the six
`detect` extractor branches into a table (a real generalization, but a refactor
outside this diff); and converging an untouched pre-existing CLI test onto the
new manifest helper (it captures a value the helper does not return, so the
change risks more than the duplication costs).

tsc clean; eslint 0 errors (1 pre-existing warning); 1085/1085.

* docs(group): remove REVIEW-FINDINGS-MAP.md

Removes the findings-to-commits ledger from the source tree.

Note for anyone reading this in history: the file was introduced on main by
#3012 and carried that PR's findings map; this branch had appended a #3020
section. Deleting it drops both. #3012's content is recoverable with
`git show 2c0fb7753:gitnexus/src/core/group/REVIEW-FINDINGS-MAP.md`.

* fix(group): stop cross-repo impact and trace claiming a narrowed graph is complete

Closes the half of the suppressed-stage finding that was deferred. The reviewers
were right that deferring it was the weak point: the motivating harm was named
as `group_impact` and cross-repo `trace` traversing a graph missing real edges,
and those were exactly the surfaces left uncovered.

The deferral rested on an assumption that does not hold. "It is already blind to
this, so we do not make it worse" is false: `--exact-only` was inert before this
PR, so the number of narrowed registries in the world goes from zero to nonzero
exactly when this lands. The blindness was harmless only while narrowing was
impossible. And silence there is not neutral -- `cross-impact.ts` documents
`truncated: false` as an affirmative completeness claim, so those tools were
about to start asserting a complete answer over a knowingly short graph.

`suppressedMatchStages` now rides the bridge the same way `unreadableRepos`
does: persisted in meta.json (no BRIDGE_SCHEMA_VERSION bump -- meta fields have
this precedent), read back all-or-nothing, and carried across the preserve path
through `refreshPreservedBridgeMeta`'s diagnostics so a preserved bridge keeps
the marker of the sync that actually built it.

`crossRepoCompleteness` folds it in, which is what makes this one change reach
all three surfaces -- that function is by design the ONE computation behind the
truncation triple. Precedence is explicit: an unreadable or unaccounted repo
outranks a suppressed stage, because it is the more serious structural gap and
its remedy has to be the one reported.

`'suppressed-stage'` is a new member of the truncation-reason union rather than
a reuse of `'incomplete-sync'`. The earlier decision not to touch that union was
about not conflating remedies -- telling an agent to repair a repo that read
fine, for a narrowing it requested. A distinct member preserves that reasoning
while letting the answer stop claiming completeness, which is what reusing the
existing member would have destroyed.

The union's guard test did its job: adding a member failed the check that every
reason is explained on the agent-facing surface, so the impact tool description
now names this one and its distinct remedy (re-run WITHOUT the flag; nothing
failed to read).

`group status` and its CLI renderer surface it too, on the populated case only
-- absent is a registry predating the field and empty is the ordinary clean
sync; neither earns a line.

Deliberately still not done, and why: a repo-wide unknown-parameter layer for
every MCP tool. Five parameters are read by backends and declared in no schema
(`subgroupExact`, `unmatchedOnly`, `showClusters`, `showProcesses`, and
`verbose` until this branch declared it), and three tools dispatch with no
schema entry at all, so a strict layer rejects working calls until each is
reconciled. That reconciliation is the work; the layer is the cheap part. It
also cannot produce the "was removed and is no longer accepted" message the
retired-parameter guard exists to give.

tsc clean; eslint 0 errors (2 pre-existing warnings); 1159/1159 across the group
unit, group integration and tool-schema suites.

* fix(group): make the suppressed-stage signal actually reach its readers

Applies the mechanical findings from the code review of the previous commit.
That commit claimed cross-repo impact and trace stop reporting a narrowed graph
as complete. Trace did; impact did not, and two operator-facing messages said
something false. Four reviewers plus the cross-model pass converged on the same
two defects, and the untested seams were exactly where they were.

`runGroupImpact` recomputed the truncation reason and hardcoded its fallback, so
it could never emit 'suppressed-stage' -- the value the previous commit added to
the union and documented in the tool description. Every narrowed-but-readable
bridge was reported as 'incomplete-sync', telling the caller to repair a repo
that read fine. It now propagates the bridge's own reason, as cross-trace.ts
already did.

The preserve path stamped this run's request onto an older bridge. When no repo
can be read the database and registry are kept from an earlier sync, so
meta.json has to keep describing that sync; instead `{ ...existing,
...diagnostics }` overwrote its marker, leaving contracts.json, meta.json and
bridge.lbug describing three different runs. Currently masked by unreadable-repo
precedence, one loosened condition from a live wrong verdict.

`group contracts` printed "the last sync did not record which repos it could
read" after any exact-only sync: truncated was set with both repo lists empty,
so the message fell through to the wrong branch. It is now gated on the reason,
not the flag. `group impact` likewise blamed the local walk for a floor the flag
caused.

The tri-state reader is now defined once, in the leaf module whose own comment
says it exists so this exact duplication cannot recur -- it had been copied into
bridge-db.ts within one commit of that comment being true.

Both agent-facing descriptions now name the field. The previous commit added it
to three payloads and documented it on none.

Tests cover what shipped green: the preserve path for both artifacts (verified
by mutation -- reintroducing the stamp turns exactly one test red), and the
reason's REACHABILITY. The existing guard only asserted each reason is
described, which is why a documented-but-unemittable value passed it.

Also corrects a comment that said the marker is deliberately not folded into the
truncation triple. True when written; false one commit later.

tsc clean; eslint 0 errors; 1163/1163 across the group unit, group integration
and tool-schema suites.

* fix(group): drop verbose from the MCP surface, fail a superseded bridge closed

Two maintainer-directed findings from the review.

verbose is removed from the group_sync MCP schema and from GroupService, and
kept on the CLI. The parameter never did what either description claimed: the
gates emit workspace-dependency discovery stats and one aggregate manifest line,
not "each cross-link". Worse, they emit them through the server's logger, which
an MCP caller cannot read at all -- so advertising it introduced precisely the
kind of knob this PR exists to delete, in the PR that deletes them. SyncOptions
keeps the field and the CLI keeps --verbose, because a CLI user really can see
that output; its help now says "Show additional sync diagnostics", which is
what it shows. It was added to the MCP schema earlier in this same PR, so there
is no published compatibility burden in taking it back out. A caller that still
sends it is ignored rather than refused: it was never a documented parameter,
and the retired-name guard is reserved for ones this tool actually withdrew.

The second fixes a split-brain the completeness work made materially worse. When
contracts.json commits and the bridge write then fails, the previous database
stays in place describing an EARLIER sync. Until now it kept vouching for
itself, so group_impact could traverse the superseded graph and call its answer
complete while group_contracts reported the advanced registry -- two public
surfaces making contradictory epistemic claims out of one sync. That was
tolerable when the disagreement was about counts. It is not, now that
suppressed-stage makes completeness a correctness property.

markBridgeProvenanceUnknown withdraws the claim without touching the database:
bridgeMetaMatchesFile already gives provenanceUnknown highest precedence and
refuses to vouch for the pair, so cross-repo answers downgrade to a floor until
a sync succeeds. Deliberately not a re-stamp -- the metadata still describes the
database it was written for, and saying otherwise recreates the mis-pairing the
preserve path avoids. Deliberately not a delete -- the old graph is still worth
having as a floor, it just stops being called complete. Best-effort, because it
runs inside a failure handler and must not replace a reported bridge failure
with an unrelated one; the warning now states which of the two happened.

Shared registry+bridge generation identity is the architectural fix and is
deliberately NOT attempted here. This is the PR-sized containment.

Verified by mutation, both directions: neutering the withdrawal turns the new
test red, and a control pins that a healthy sync does not withdraw provenance --
otherwise every successful run would report its own answers as a floor.

tsc clean; eslint 0 errors; 1185/1185.

* refactor(group): apply simplify-pass findings

Four cleanup agents over the last five commits. Efficiency was clean and traced
why: the containment helper is failure-path only, the reason ternary sits after
the fan-out loop, and the tri-state readers run once per artifact read.

The strongest finding was one the diff itself proved. `refreshPreservedBridgeMeta`
enforced the never-persisted rule for `repoListsUnreadable` and
`pairedWithDatabase` with two deletes in its own body, under a comment noting it
was the only code that read metadata and wrote it back. That held exactly as
long as there was one such caller. `markBridgeProvenanceUnknown` made it two,
and inherited nothing. The strip now lives in `writeBridgeMeta`, so every writer
gets it and no future one can forget; `pairedWithDatabase` is the dangerous one,
because persisted it tells every later reader the pair was verified when nothing
verified it.

`group impact` still printed "fan-out stopped early" whenever `truncatedRepos`
was non-empty — but the bridge's incomplete repos are unioned into that list
even when zero crossings were attempted, so a structural gap was reported as a
runtime one, with the only working remedy omitted. That is the same false-cause
shape the contract listing was re-gated for one commit ago, left live one
command over because the new reason was bolted in front of the old branch rather
than replacing the thing it branched on. Now keyed on the reason.

The `?? 'incomplete-sync'` arm in cross-impact was unreachable: reaching it
needs `truncated` true with all three of its inputs false, which
`truncated = runtimeTruncated || bridge.truncated` forbids. Flattened.

Also: a `recordedMatchStages` insert had split `crossRepoCompleteness` from its
own JSDoc; one new test was a strict subset of another; and the bridge-failure
warning interleaved concatenation with a mid-chain ternary.

The new invariant assertion was caught being VACUOUS by mutation before it
shipped — seeded with a valid repo list, `readBridgeMeta` never sets the
reader-only field, so it passed with or without the strip. The fixture now seeds
an unreadable list, and both it and the pre-existing assertion go red when the
strip is removed.

Deliberately skipped, with reasons: a shared `firstTruncated` fold over
`TruncationFields` (the right altitude, but it changes cross-trace's return
assembly and that surface separately documents a 'timeout' rung it cannot emit —
a behavior change, not a cleanup); a reason-keyed `explainFloor` helper across
all four CLI renderers (real, but a four-site refactor); narrowing the persisted
stage vocabulary to a `SuppressibleStage` alias (would be undone by the very
extension the field was modelled as a list to allow); moving `verbose` to
`logger.debug` and deleting `SyncOptions.verbose` (the maintainer explicitly
directed keeping both); and merging the two tri-state readers behind a predicate
(they are adjacent in one file now, so a tightening applies to both by
inspection — the duplication the comment warned about was cross-FILE).

tsc clean; eslint 0 errors; 1164/1164.

* fix(group): address gitnexus-check findings

Seven bot comments across two review rounds; five distinct after dedup. Four
were valid and are fixed, two were already resolved by later commits the bot
had not seen.

The validator could throw from its own error path. `JSON.stringify` is the right
renderer there — it is what distinguishes the string "false" from the boolean,
which is the entire point of the message — but it throws on a BigInt and on a
cyclic object. So a validator promising a structured `{ error }` instead
rejected, and `callTool` is reachable directly, so neither input is
hypothetical. Guarded, keeping the distinction and falling back for the shapes
that cannot serialize.

An unreadable suppression record read as "nothing was suppressed".
`recordedMatchStages` is all-or-nothing by design, so garbage collapses to
`undefined` — and the consumer treated `undefined` as an empty measurement,
throwing that safety away and reporting a registry it could not parse as
complete. Present-but-unreadable now forces the floor, while absent stays
legitimate: a registry written before the field existed has no opinion and
should not be dragged to a floor for it.

Two test-side findings, both real and both invisible to CI because
`tsconfig.json` is src-only. Three `mock.calls[0][1]` accesses did not
type-check against a zero-arg mock, and four assertions read `truncationReason`
/ `riskEpistemic` straight off `CrossRepoCompleteness`, which is a discriminated
union carrying them on one arm. Also removed a `StoredContract` import that went
dead when those fixtures moved to `makeWildcardPair`.

Worth recording: U6 set a test-config gate at 989 errors and later commits
walked it to 994 without anyone re-measuring — the bot caught three of the five.
Now 987, below the original baseline.

Already fixed, not by this commit: the preserve-path stamp the bot flagged
against 6ceac8b1f (fixed in 1fbe0dc6b) and the displaced completeness JSDoc
(fixed in 2d2ef8c47).

Both behavior fixes are mutation-verified: restoring the unguarded stringify
turns the new unserializable-value test red, and a control pins that an absent
record still reads as complete so the fails-closed change cannot pass by forcing
every registry to a floor.

src tsc clean; eslint clean; 1167/1167.

* chore(autofix): apply prettier + eslint fixes via /autofix command

---------

Co-authored-by: Claude Opus 5 (1M context) <noreply@anthropic.com>
Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
2026-08-27 18:27:32 +01:00
DuduPhudu
2c0fb7753c
fix(group): stop reporting what could not be measured as a measurement of zero (#3012)
* fix: surface unreadable group indexes and escape raw NUL bytes in source

Two independent diagnostics failures, both of which turn a real error into a
confident, benign-looking answer.

**Unreadable member repos (#3011).** `syncGroup` wrapped `initLbug` plus all
contract extraction for each member in a bare `catch {}` that pushed the repo
onto `missingRepos` and discarded the error. A LadybugDB storage-version
mismatch therefore surfaced as "repo not found", `group sync` printed
`0 contracts, 0 cross-links` and exited 0, and the existing contracts.json was
overwritten with an empty registry. The two states need different answers from
the operator — a missing repo must be indexed, an unreadable one is usually
version skew or a lock — so they are now separate:

- the caught error is logged with the repo, group path and lbug path
- `unreadableRepos` is tracked alongside `missingRepos` on `SyncResult`,
  persisted (optionally, so older registries still parse) on `ContractRegistry`,
  and threaded through `GroupService` sync/status
- `group sync` reports both before the cascade counts, since an unread repo is
  the likely explanation for a small or empty count
- `group status` reports unreadable repos separately; calling them "missing"
  actively misdescribed them
- when EVERY configured repo fails to open, the write is skipped: an extraction
  that read nothing is not evidence the group has no contracts, and replacing a
  good registry with an empty one loses data while reporting success

**Raw NUL bytes (#3010).** `sync.ts` and `free-call-fallback.ts` each used a NUL
as a join delimiter, written as a literal 0x00 instead of `\0`. Identical at
runtime, but it makes the file test as binary: `file(1)` reports `data`, ugrep
returns empty with exit 1 — indistinguishable from "no match", with no message —
and BSD grep replaces matching lines with "Binary file ... matches". A search
that should hit comes back as a confident "not present". Both now use the escape,
and a unit test fails on any raw control byte in src/ so it cannot silently
return.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(hygiene): guard every tracked source file against a raw NUL, not just src/

The guard added with the NUL escapes only scanned gitnexus/src for .ts/.tsx.
Neither prior recurrence of this defect in this repo was in that scope:
b620773b1 was gitnexus/bench/cpp-qualified-ns/measure.mjs and 38d737bb5 was a
fixture under gitnexus/test. A guard that cannot see where the bug has actually
landed twice is not a guard.

Drive the file list from `git ls-files` at the repository root over
.ts/.tsx/.js/.jsx/.mjs/.cjs/.mts/.cts — 2483 files instead of 828 — and split
the byte class, which is the part that matters:

  - 0x00 is a hard failure repo-wide. It is the byte git's binary heuristic
    keys on, so it is the one that costs a file its diff (and, on the base side
    of a PR, its inline-comment anchors and its three-way merge).
  - The wider C0 class stays scoped to gitnexus/src. A repo-wide scan finds
    exactly one hit, test/unit/logger.test.ts:146, and that 0x1b is a
    legitimate ANSI-escape fixture that is the subject of the test. Widening
    this half would go red on day one.

Read Buffers and scan bytes instead of decoding each file to latin1, through a
bounded read pool: 1.5 s for 2483 files, against 8-21 s previously for 828.

Add a negative fixture — a planted 0x00 and 0x1b run through the same scanning
helper — so a future refactor of the collector cannot leave a permanently green
guard, plus an assertion that the collected set still reaches bench/, test/ and
.mjs, which goes red if the scope is ever narrowed back.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_014g48u4WcRZy543Wqp5NhpV

* fix(group): report a cross-repo impact built from an incomplete bridge as truncated

When a sync cannot read a member repo, that repo's contracts and every
cross-link touching them are simply absent from bridge.lbug. Nothing in the
impact walk could notice: the only incompleteness channel on a
GroupImpactResult is truncationFields(), which is driven by fan-out state
(truncatedRepos / localPartial / fanoutTimedOut), and a repo missing from the
bridge sets none of them.

So `group impact` on a symbol whose one downstream consumer lives in an
unreadable repo returned `{ cross: [], truncated: false }` — "complete: nothing
in another repo depends on this". That is a wrong answer, not an empty one, for
a tool an agent uses to license a delete or a rename.

BridgeMeta now records unreadableRepos alongside missingRepos, writeBridge
persists it when non-empty, and runGroupImpact folds a non-empty
unreadableRepos ∪ missingRepos into truncated / riskEpistemic: 'lower-bound',
naming the repos in truncatedRepos.

The reason is a new 'incomplete-sync' rather than the existing 'partial'
because the remedy differs: 'timeout' and 'partial' are runtime limits the same
query can clear on a retry, while this one clears only when `gitnexus group
sync` succeeds. Runtime limits still take precedence when both apply, since
those are what the caller can act on immediately.

The risk VALUE is never clamped down — mergeRisk is monotone in the traversed
crossing count, so an incomplete bridge can only under-report. Marking the floor
is what makes that legible.

Both shape changes are additive and optional, so a bridge written before this
still reads.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_014g48u4WcRZy543Wqp5NhpV

* fix(group): say truthfully what a sync did to contracts.json

Review follow-ups to the unreadable-repo diagnostics. Every item below is a
place where the code still answered a question it could not answer.

1. The CLI announced a write it did not perform. `group sync` printed "Wrote
   contracts.json (0 contracts, 0 cross-links)" unconditionally, including on
   the path that deliberately left the file alone. SyncResult now carries
   registryOutcome ('written' | 'preserved' | 'not-attempted'), the CLI prints
   from it, and group_sync returns it so an agent that calls group_sync then
   group_contracts can tell why the counts disagree.

2. Refusing to write anything on total failure threw away the diagnostic
   describing the run that just happened. `group status` reads contracts.json
   from disk, so the operator who saw the sync fail and ran status to find out
   why read the PREVIOUS sync's file: no unreadable list, an old lastSync, a
   healthy-looking group — or worse, the previous run's unreadable list
   presented as this one's. The skip is now targeted: contracts, crossLinks,
   repoSnapshots and generatedAt carry forward verbatim, only missingRepos and
   unreadableRepos are refreshed. generatedAt stays put because it dates the
   contracts, which are still the previous run's. With no prior file, or an
   unparseable one, nothing is written at all.

3. Per-repo extraction is now all-or-nothing. Extractors run in sequence and
   any one can throw; appending each one's results straight to autoContracts
   meant a repo whose HTTP extractor succeeded and whose gRPC extractor then
   failed contributed a partial set to the registry, while the same run told
   the operator that repo's "contracts are omitted from this sync".

4. readRegistry gains an opt-in strict mode, and syncGroup uses it. The lenient
   `catch { return []; }` converted "I could not read the registry" into "no
   repo is registered": every configured repo then resolved to MISSING, the
   total-failure guard stayed off (it needs a load error), and a good
   contracts.json was replaced by an empty one at exit 0. That is an unreadable
   condition reported as missing, one frame above the code this branch fixes.
   The default stays lenient for the other nine callers; ENOENT stays lenient
   in both modes.

5. Absence of unreadableRepos keeps meaning "not recorded". The loader spreads
   the key in only when present instead of defaulting to [], and getStatus
   passes undefined through, so a legacy registry no longer reads as "the last
   sync found none unreadable". getStatus also gates both list fields on
   Array.isArray: it reads through readContractRegistry, which is a bare
   JSON.parse cast, so a corrupt string in either slot used to reach
   cli/group.ts and die in .join(', ') — the command whose job is explaining an
   unreadable thing, crashing on one.

6. Smaller, same theme: the per-repo warning passes the Error itself rather
   than err.message, so pino keeps the stack; the total-failure warning no
   longer fires on a dry run, where it described a file the call was never
   going to touch and which need not exist; the status table's MISSING legend
   stops re-conflating the two states; the sync warning drops its
   GITNEXUS_LOG_LEVEL=warn hint, which would only have suppressed output (pino
   emits warn at the default info level, so the reason was already printed);
   and the group_sync tool description and its idempotency comment now describe
   what the tool actually does.

Testing. The original four cases could not see the change they were named
after. Mutation testing showed two survivors: dropping the ===
configuredRepoCount conjunct, which turns "every repo failed" into "any repo
failed" and would silently freeze contracts.json for a group where one of five
repos is skewed; and deleting both logger.warn calls, the stated purpose of the
change. Both survived because every case configured exactly one repo and
nothing read the log. There is now a two-repo case running the real per-repo
loop, an all-missing case, a _captureLogger assertion on the level 40 record,
partial-extraction cases, and strict-read cases. All five mutants are killed,
each by exactly one test.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_014g48u4WcRZy543Wqp5NhpV

* fix(group): tighten the registry list gates and stop naming a truncation reason on complete results

Three follow-ups from the check bot's pass over the previous commits.

1. `detect.includes` was missing from both group-sync test fixtures, so they did
   not satisfy the `GroupConfig` they claim to construct. It went unnoticed
   because `tsconfig.json` is src-only; `tsconfig.test.json` reports it. The
   older of the two fixtures carried the gap in from the original commit.

2. `runGroupImpact` named its truncation reason in a variable computed before
   the truncated check, so on a fully complete result the variable read
   'incomplete-sync'. `truncationFields` discards the reason when `truncated` is
   false, so nothing surfaced — but a value that is wrong whenever it is unused
   is a trap for the next reader. Computed inline at the one call site that can
   consult it, which is also how the neighbouring call sites are written.

3. `Array.isArray` alone let a corrupt registry through. `['app/backend']` and
   `[{repo:'x'}]` are both arrays, and only the second reaches `cli/group.ts`'s
   `.join(', ')` — as `[object Object]`, a measurement the operator can read but
   cannot act on. Both readers now go through one `recordedRepoList` helper that
   requires an array of strings; anything else is "not recorded", the same as
   absent. Two more rows in the corrupt-value table cover it.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_014g48u4WcRZy543Wqp5NhpV

* fix(group): keep readRegistry's signature, and stop describing unreadableRepos as index-only

Two items from the check bot's blocking pass.

1. `readRegistry` gained an optional `opts` parameter last commit. That is
   source-compatible — every zero-argument call still compiles and behaves
   identically — but the contract check treats any parameter-list change on a
   symbol with outside callers as a break, and it is right that the safest
   version of this change touches that signature not at all. The strict read is
   now its own export, `readRegistryStrict()`, over a shared private body.
   `readRegistry()` is byte-identical to what it was; `syncGroup` is the only
   caller of the strict one, and the mode is legible at the call site instead of
   hiding in an options bag.

2. `unreadableRepos` is described everywhere as "the index could not be opened".
   That was accurate before this branch and is not now: making per-repo
   extraction all-or-nothing means a repo also lands there when an extractor
   throws partway with the index open fine. The two belong in one bucket
   because the consequence is one thing — none of that repo's contracts are in
   this sync — but the docs have to say so, or an operator reads `unreadableRepos`
   as a storage diagnosis and goes looking at LadybugDB for an extractor bug.
   Corrected on `ContractRegistry`, `BridgeMeta`, `SyncResult`, the `group_sync`
   tool description, and the `group sync` console output, which now says
   "Could not extract contracts from" rather than "Could not read the index for".

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_014g48u4WcRZy543Wqp5NhpV

* fix(cli): stop calling an unreadable registry an old one in group status

`getStatus` reports `unreadableRepos` as `undefined` for two different reasons:
the field is genuinely absent, or it held something that was not a list of repo
paths and the shape gate declined to guess. The status line named only the
first — "registry predates this field" — so a corrupt value read as a merely
old registry.

That is the same shape of wrong answer this command exists to stop giving: a
condition we could not read, presented as a benign one we understand. The line
now names both, and asks for a sync either way, which is the fix in both cases.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_014g48u4WcRZy543Wqp5NhpV

* fix(group): close the three fail-open paths left on the safety boundaries

Follow-ups from the re-review of 31c2b6e81. All three of its blocking findings
reproduce; each is a place where unknown state still resolved to a confident
benign answer, which is the one thing this branch exists to stop.

1. Strict registry reading accepted malformed rows. `[{}]` is a JSON array, so
   it passed the shape check: every configured repo then failed to resolve into
   `missingRepos`, none produced a load ERROR, the total-failure guard stayed
   off, and a good contracts.json was replaced with an empty one at exit 0 —
   the same fail-open the strict mode was added to close, one level down from
   the file to the rows inside it. Strict mode now requires `name`, `path` and
   `storagePath` on every row and rejects the WHOLE registry if any row fails.
   Rejecting rather than filtering is the point: dropping bad rows would report
   the repos they name as unregistered, which is the same wrong answer again.
   `indexedAt` / `lastCommit` are deliberately not required — callers already
   default them, so demanding them would trade a fail-open for a fail-shut on a
   legitimate legacy registry.

2. A failed bridge publication could make impact look complete. `writeBridge`
   swaps `bridge.lbug` and writes `meta.json` as two operations, and this branch
   made that meta load-bearing: `runGroupImpact` derives its truncation fields
   from it. A sync interrupted between the two steps therefore left a NEW bridge
   beside the PREVIOUS sync's metadata, and an impact query read that as
   "complete". Fixed from both ends. The write path removes the old meta before
   the swap, so the window leaves metadata ABSENT rather than stale. The read
   path treats absent-or-unparseable meta (`version: 0`) as unknown provenance
   and reports a floor, which also covers the caught `writeBridge` failure in
   `syncGroup`. Over-reporting truncation on a bridge that is actually fine is
   the safe direction, and the next successful sync clears it.

3. `preserved` was returned when there was nothing to preserve. On a group's
   first all-unreadable sync the outcome was set before the prior registry was
   read, so the CLI told an operator "the contracts from the previous sync are
   preserved" about a file that had never existed. Split out as
   `no-prior-registry`, with its own console message.

Also widened the NUL guard to the source languages it claimed to cover. The
commit that added it said "every tracked source file" while the collector
stopped at the JS/TS family, so a raw NUL in tracked Python, Java, Go, Rust,
C/C++, Ruby, PHP, Kotlin, Swift, C# or shell would still have turned those files
binary unnoticed. Measured before widening: 2315 non-JS tracked source files,
zero hits, so this was an unforced gap rather than a tradeoff. A planted `.py`
fixture and a collector-coverage assertion keep it honest.

Every fix is mutation-verified: reverting each one individually turns its own
tests red (3, 2, 2, 1 and 1 failures respectively), and all pass together.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_014g48u4WcRZy543Wqp5NhpV

* fix(group): record the empty unreadable measurement instead of dropping it

Both writers omitted `unreadableRepos` when it was empty, which made the
tri-state this branch introduced unreachable in its most common case.

`ContractRegistry.unreadableRepos` is optional on the TYPE so a registry written
before the field existed still parses, and absence there means "not recorded".
But a sync that read every repo successfully HAS measured it, and `[]` is that
measurement. Dropping it collapsed "measured, none" into "never recorded", so
after every clean sync `gitnexus group status` printed

    Last sync unreadable repos: not recorded
    (the registry predates this field, or its value could not be read)
    Re-run `gitnexus group sync` to record it.

about the sync that had just succeeded. The distinction is only worth having if
the writer commits to it, so both `contracts.json` and the bridge's `meta.json`
now record the field whenever the sync supplied it, `[]` included.

The check bot found this on the bridge writer and attributed the consequence to
`group status`. The consequence is real but it is not the bridge's: `getStatus`
reads `contracts.json` and never touches `BridgeMeta`, whose only consumer is
`runGroupImpact` — where absent and empty are already equivalent. So the
user-visible half was in the registry writer, one file over from where it was
reported, and both are fixed.

Also fills in `DetectConfig.includes` (and `workspace_deps`) across the group
test fixtures that predate those fields. These are pre-existing on main and are
a no-op at runtime — `undefined` and `false` are both falsy at the gate — but
they are the same defect the bot flagged as an error in the new fixtures, and
`tsconfig.test.json` reported eleven of them. That file is not in CI, which is
why they survived; the group tree is now clean of them.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_014g48u4WcRZy543Wqp5NhpV

* test(group): stop two bridge-metadata tests claiming coverage they do not have

Both were named for the swap window and neither injects a swap failure.

"drops the previous meta.json before swapping the database file" runs two
successful writeBridge calls. Its assertions hold with the removal in either
position, because writeBridge overwrites meta.json at the end regardless — so
it cannot pin the ordering it is named for. Renamed to what it does cover, the
successful-rebuild replacement, with the limit stated in the body rather than
left for the next reader to discover.

"leaves NO meta.json when the swap fails partway" removes the file by hand
after a successful write, so it exercises readBridgeMeta's missing-file
contract, not writeBridge. That contract is worth pinning on its own — version 0
is the signal runGroupImpact fails closed on — so the test stays, under a name
that says so.

The ordering itself is pinned in bridge-meta-swap-window.test.ts, which mocks
retryRename to throw on the bridge.lbug swap and asserts the previous sync's
metadata cannot survive it. Both renamed tests now point there, so the coverage
is findable from the place someone would look for it.

No production code changes.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_014g48u4WcRZy543Wqp5NhpV

* fix(group): pair bridge metadata to its database instead of deleting it

The previous commit closed the swap/metadata window by removing meta.json before
the database swap, so the window would fail to "absent" rather than "stale". That
was the wrong trade, and it destroyed recoverable state.

The old database's move to `.bak` sits inside a catch that swallows failures, not
just "no existing db". When that rename fails — a held read-only handle does this
on Windows, and a long-lived MCP server holds one — the failure is swallowed, the
following `tmp -> bridge.lbug` throws, and writeBridge exits with the OLD database
still in place and perfectly valid. Its metadata was already deleted. Cross-repo
impact then answers "we cannot say" for that group until some future sync
succeeds, and if the cause is a held handle or permissions there is no such sync.
A working feature, destroyed permanently to close a narrow window.

Deleting also only chose which way the window failed; it never closed it.

So destroy nothing, and make the pair self-describing instead: writeBridge stamps
the database's size and mtime into the metadata it writes, and
`bridgeMetaMatchesFile` lets a reader ask whether the two still belong together.
`runGroupImpact` treats a mismatch the same as absent metadata — provenance
unknown, report a floor. A metadata file left over from an earlier sync cannot
match a freshly renamed database, and a sync that fails before the swap leaves a
matching pair untouched. Metadata written before the stamp existed is
unverifiable rather than stale, and is accepted: failing those closed would mark
every pre-existing bridge incomplete, trading a narrow window for a repo-wide
regression.

The swap-window test now distinguishes the two failure shapes, because they want
different answers. When every rename fails the old database never moves, so the
surviving metadata still matches it and impact keeps answering from it. When only
the final rename fails the old database has already reached `.bak` and no
database is in place, so the metadata correctly matches nothing — and
`ensureBridgeReady` fails loudly on the absent file, which beats a silent floor.

Mutation-verified: reinstating the delete, neutering the pairing check, and
dropping the stamp each turn 2, 3 and 3 tests red respectively.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_014g48u4WcRZy543Wqp5NhpV

* chore: keep TypeScript diffs readable after a NUL leaves the tree

Git decides a pair is binary when EITHER blob carries a NUL, and it only
sniffs the first 8000 bytes. `gitnexus/src/core/group/sync.ts` carried one
at byte 5132 on main. This branch removes it, but the base side still has
it, so the file renders as "Binary files differ" in the pull request: no
hunks, no inline comments, and no three-way merge — however clean the head
side is. A head-side byte guard cannot detect that, by construction, since
it only ever sees the working tree.

Setting the `diff` attribute stops the heuristic from hiding the change.
It does not mark the files binary, does not imply `text`, and does not
change how blobs are stored, normalized, or checked out — the root
`* text=auto eol=lf` still governs all of that. It affects diff generation
and rendering only.

Locally this turns the branch's own sync.ts diff from `Bin 17612 -> 25346
bytes` into 154 insertions and 16 deletions.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group): answer "provenance unknown" for malformed bridge metadata

`readBridgeMeta` guarded the read and the parse but not the SHAPE of what it
parsed, then cast the result. `runGroupImpact` spread both repo lists straight
into a Set, so a `meta.json` whose `missingRepos` held an object threw a
TypeError out of the entire cross-repo query — and threw it from a point after
`ensureBridgeReady` had taken the bridge lease and before the `try` whose
`finally` releases it, so every such query also leaked a refcount the cached
handle could never get back. A malformed file is a reason to answer "we cannot
say", never a reason to crash the question.

The shape gate now lives where the metadata is read, mirroring the one
`service.ts` already applies to the registry's copies of these same two lists.
Each list is judged independently: a garbage `unreadableRepos` no longer
discards a `missingRepos` that was genuinely measured. A list that was present
but unusable is dropped rather than normalized to `[]`, because an unreadable
value is not a measurement of zero — the new reader-side `repoListsUnreadable`
carries that distinction, and `runGroupImpact` folds it into the same
provenance-unknown verdict it already reaches for `version: 0` and for
metadata that does not pair with the database beside it.

A root that is not an object is closed too. `JSON.parse` succeeds on `null`,
`7` and `[]`; the first threw on `.version`, and the other two read `undefined`
and sailed through the version gate as if the bridge had been vouched for.

Both provenance values moved inside the protected region and are initialized
fail-closed, so a future throw between the lease and the walk releases rather
than wedges.

`repoListsUnreadable` is reader-side only: the sole `writeBridgeMeta` call site
builds a fresh literal, so nothing persists it and no schema version moves.

Mutation-verified: reverting the shape gate alone turns 4 tests red — the three
malformed-list scenarios plus the handle-release regression.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(storage): reject registry rows that cannot identify a repo

The strict read's row gate gave `typeof v === 'string'`, and `typeof '' ===
'string'`. A row whose `name` was blank therefore passed as resolvable, then
matched nothing in `defaultResolveHandle` — putting every configured repo in
`missingRepos` and presenting an unusable registry as a clean answer about an
empty one. That is the same unreadable-as-missing fail-open the strict mode
exists to close, one level further in. A blank `storagePath` is worse than
useless: it joins to a relative `lbug` under the current directory, so the sync
opens an index that is not the repo's.

Both now have to be non-blank after trimming. `path` stays at the bare string
check, on the same reasoning that already exempts `indexedAt`/`lastCommit`:
require only what resolution depends on to IDENTIFY the repo. This gate rejects
the whole registry and the registry is machine-wide, so a field tightened past
what identification needs would let one blank value in one row break every
group sync on the machine — including groups whose repos all resolve. A blank
`path` still yields a working handle; `defaultResolveHandle` does read it, but
only for the pool id and `repoPath`, neither of which decides whether the row
names a repo.

The error now says what is actually wrong instead of naming three fields that
are all present.

Mutation-verified in both directions: dropping the trim turns the three
rejection tests red, and applying the wider fix that was considered and
declined — tightening `path` too — turns exactly the counter-case red, so that
test genuinely pins the narrow reading rather than passing either way.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group): bound the per-repo contract staging append

`autoContracts.push(...repoContracts)` passes every staged contract as a
separate argument, and the engine caps how many arguments one call may take.
That cap is a function of the host's available stack, so it is a different
number on every machine — this one accepts a 125k-element spread and dies at
150k.

The spread itself is not new; what it carries is. Before staging, this line
appended a single extractor's output as it came back. Staging made it carry the
whole repo's, which is enough for a large repo to raise `RangeError: Maximum
call stack size exceeded` on the one line whose job is to commit work that just
succeeded. The throw lands in the catch below, so the sync reports a repo whose
extractors all ran cleanly as one whose index could not be read — a crash
wearing the costume of a diagnostic.

A bounded loop replaces it: the count a repo can stage is now bounded by memory
rather than by how much stack the process happened to get.

The guard is structural, not size-based, and deliberately so. A "make the
fixture big enough to crash" test passes against unfixed code on any host with
a larger stack, which is exactly the guarantee a regression gate cannot give
up. It walks the AST and locates the region by role — the `const` staging
buffer typed `StoredContract[]`, then the extractor `try` that is a direct
statement of the block declaring it — so renaming either identifier keeps it
pointed at the same code. `.apply()` is rejected alongside spread, being the
same hazard in different syntax.

Direct statements only, because `syncGroup` wraps this whole section in its own
try/finally for the lease sweep, and that ancestor reads the buffer too.
Matching any enclosing `try` pulls in the entire function body — including the
two windowed-manifest spreads, which are bounded by the window size and are not
what this fixes.

Mutation-verified in both directions: restoring the spread turns the gate red
naming that line alone; deleting a manifest-window spread, and separately
adding a third one, both leave it green.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group): keep unreadable repos out of manifest contracts too

Per-repo staging closed one door: a repo whose extractor threw contributes
nothing through the direct path. Deferred manifest resolution was a second
door, still open. It derives its known-repo set from the resolved-handle map,
which kept an entry for a repo the same run had already declared unreadable —
so the sync re-opened that index and resolved symbols against a database it had
just told the operator it could not read.

Deleting the handle in the catch stops the re-open, but it does not satisfy
R2 on its own: `ManifestExtractor` resolves both endpoints of a link and emits
a contract for each, and for an endpoint with no executor that contract is
still emitted with a synthetic UID. The registry ended up naming a repo the
same run reported unreadable.

So the emitted output is filtered by ENDPOINT, not by link. Dropping the whole
link would delete the healthy partner's contract as well — a repo losing its
own output because a neighbour's index would not open, which is wider than the
requirement and destroys good data to suppress bad. A cross-link is different:
it asserts something about a pair, so if either end is unreadable there is
nothing left to anchor it to, and a half-anchored link is exactly the
confident-about-what-it-could-not-read answer the registry must not give.

Deleting the handle also changed what the operator gets told, so the warning is
split. An unreadable repo IS configured; letting it fall into the "references
repos not in config.repos" branch states something false and sends the reader
to edit group.yaml for a problem only re-indexing fixes. It now gets its own
message naming what was actually omitted.

Mutation-verified four ways: reverting the endpoint filter turns three
scenarios red; the over-broad whole-link variant turns the healthy-partner
scenario red and nothing else; removing the handle delete turns the
no-re-open scenario red; and reverting the warning split turns the operator-
message scenario red. Every assertion reads the written contracts.json rather
than the in-memory result.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* refactor(group): keep readBridgeMeta's signature stable across the shape gate

The shape gate landed by widening the return type to a reader-only
`ReadBridgeMeta extends BridgeMeta`. That is source-compatible — a covariant
return, one added optional field, every existing caller unaffected, typecheck
and suite clean — but the contract check reads it as a changed signature with a
caller left behind, and blocks the merge on it. This branch already hit the
same wall on `readRegistry` and settled it the same way: leave the signature
alone and make the difference legible some other way.

So the flag moves onto `BridgeMeta` itself as an optional, documented,
never-persisted field, and `readBridgeMeta` goes back to the exact signature
its callers already compile against.

That is the better shape here anyway. The reader-only subtype would have split
the validation two ways: `openBridgeDbReadOnly` and `bridgeExists` both gate on
`meta.version`, and the normalization that comes with the gate is what stops a
`version: null` in a hand-edited meta.json from reading as `undefined` and
sailing through `version > 0` as though the bridge had been vouched for. One
type keeps all three callers behind the same guard.

Nothing persists the flag: `writeBridgeMeta`'s only caller builds a fresh
literal, so it cannot round-trip to disk.

No behavior change — pure type restructuring. 927 tests pass, typecheck clean.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group): stop treating a half-written bridge stamp as a verified match

`bridgeMetaMatchesFile` joined its two `undefined` checks with `||`, so
metadata carrying a size and no mtime — or the reverse — returned `true`, the
same answer it gives a fully verified pair.

A stamp is a PAIR. Both halves absent is the legacy shape: metadata written
before stamping existed, which cannot be verified either way and is accepted
deliberately, because failing it closed would mark every pre-existing bridge
incomplete until re-synced. Exactly one half present is not that. Something
wrote a stamp and did not finish, which is precisely the condition stamping was
added to detect — so the check handed back "verified" for the one shape that
most deserves suspicion, and a cross-repo impact query built on it would report
a confident answer about a database its metadata cannot vouch for.

The two states are now separated: neither half present accepts, exactly one
rejects as provenance-unknown, both compare against the file as before.

Found by the repository's own contract check, not by the plan.

Mutation-verified: restoring the `||` form turns both half-stamp cases red
while the legacy and fully-stamped controls stay green, so the pair genuinely
pins the distinction rather than passing either way.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group): pair unstamped bridge metadata by write order, before any open

Unstamped metadata was waved through: `bridgeMetaMatchesFile` returned "matches"
for any pair with no stamp to check, so the stale-meta-beside-a-new-database
window stayed open for every bridge written before stamping existed, and
`runGroupImpact` spent that metadata's completeness as fact.

`writeBridge` renames the database into place and writes the metadata after, so
`meta.mtime >= db.mtime` holds for any pair written together — including by
builds that predate the stamp. A database strictly newer than the metadata
beside it can only come from a swap whose metadata write did not land. That is
the fallback now. It is a heuristic on write order, not proof of provenance, and
it is wrong in two directions: a stale metadata file touched after the swap
still reads as paired, and a pair whose clock stepped backwards between the two
writes reads as unpaired. Both are recorded at the code; the second is the safe
direction. Equality counts as paired, or a coarse-granularity filesystem would
reject every legacy bridge for a reason that is about the filesystem.

The verdict is now taken in `ensureBridgeReady` BEFORE the database is opened,
and carried on the metadata rather than recomputed afterwards.

That ordering is load-bearing, not tidiness. Impact and trace both open the
bridge and only then ask about provenance, so on any platform or LadybugDB
build where a read-only open advances the file's mtime, every pre-stamp bridge
would report provenance-unknown from its first query onward — the exact
repo-wide regression this rule was chosen to avoid, arriving as a silent
downgrade rather than an error. It does not happen on Linux, which was measured.
It cannot be measured on Windows: pinning it by really opening the database
needs an in-process write→read reopen of the same bridge.lbug, which is a
documented limitation there. Rather than ship a Windows-skipped test and leave
the assumption unverified on the platform whose file semantics are most likely
to differ, the check moved ahead of the open so no platform has to be trusted.

The new guard forces the hostile case on every platform: the open is stubbed to
advance the database's mtime, and the verdict must still be "paired". It is
registered in the cross-platform list so the Windows and macOS shards run it,
and it has a control so it cannot pass vacuously.

Two existing fixtures mocked `readBridgeMeta` to return a stamped-era version
while never writing a meta.json — a state production cannot reach, since a
non-zero version can only come from a file that exists. They now write the
metadata their own mock claims to have read, rather than the helper being
loosened to accept metadata it cannot stat.

Mutation-verified twice: reverting the write-order branch turns both rejection
cases red while all four legacy-accept cases stay green, and moving the pairing
call back after the open turns the ordering guard red on its own.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* refactor(group): compute cross-repo completeness in one place

Three surfaces can return a partial cross-repo answer — impact, trace, and the
contract listing — and each decided for itself whether it was complete. Impact
carried the structured triple; trace said it in prose, if at all. An agent
reading a not-found trace had no machine-readable way to tell "there is no
path" from "there may be a path in a repo this sync could not read", which is
the difference between an answer and a floor.

`crossRepoCompleteness` is now the one computation, and its input deliberately
does not name where any of it came from. `BridgeMeta` is not in the signature
and must not be: `groupContracts` answers the same question from contracts.json
and never opens a bridge, so `version`, `repoListsUnreadable` and
`pairedWithDatabase` do not exist on that path. Each caller derives its own
`provenanceUnknown` — the bridge callers through `bridgeProvenanceUnknown`,
which stays separate for exactly that reason — and passes the boolean in.

Scope arrives as a predicate rather than a repo list or a subgroup, so
narrowing a query's scope stays a change to one argument at the call site.

The trace results now carry `truncated` / `truncationReason` / `riskEpistemic`
like impact does. `notes` is untouched; it remains an addition to the machine
channel, never the channel.

One correction to the approach as written: it said to pass the trace's two
endpoint repos as the predicate, but a destination trace declares no `to`. It
asks where a call lands, so any member may hold the answer — and an unreadable
provider repo is precisely how "no outgoing ContractLink leaves this repo"
becomes a wrong answer rather than an empty one. Filtering that path to the
`from` repo would have reintroduced the bug this unit exists to close, so it
passes every repo and a test pins it.

Two pre-existing paths become consistent with the vocabulary as a result: a
crossing-capped result now reports `truncationReason: 'partial'` alongside the
`truncated` flag it already set, and the destination path's `ambiguous` returns
now report the cap its `ok` and `not_found` siblings already reported. Both are
additive — no field is removed, and no `truncated` flips from true to false.

`truncationFields` returns a discriminated union now, so `truncationReason`
reads without a fallback on the branch where it cannot be absent.

Mutation-verified: reverting the provenance fold alone — one line in the shared
helper — turns 8 tests red across both surfaces, 2 new trace scenarios and 6
existing impact ones, which is the point of there being one helper.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group): narrow the incomplete-repo set to the query's declared scope

A subgroup-scoped impact query was marked a lower bound by repos it had
explicitly excluded. The fan-out already drops every neighbour outside the
subgroup, so those repos could not have contributed a crossing to the answer —
and a completeness marker that fires on results it does not describe is how a
caller learns to ignore the marker.

The scope is the query's DECLARED one, not the one the walk reached. An
incomplete repo's contracts are absent from the bridge by definition, so it is
never in the traversed set; filtering on what was traversed would empty the
intersection on every query and silently restore the fail-open this channel
exists to close.

Declared scope here is the subgroup PLUS the query's own repo, which the
approach did not account for. The walk starts from that repo's contracts in the
bridge, so when it is the repo the sync could not read there are no crossings
to find under any scope — and a subgroup excluding it would have turned that
vacuum into a confident "nothing depends on this", for a tool an agent uses to
license a delete. That case reported a floor before this change, so narrowing to
the subgroup alone would have been a regression. The union only ever widens the
in-scope set, so it cannot re-mark a repo the query excluded.

Membership goes through the existing `repoInSubgroup` in both clauses, `exact`
for the origin equality, rather than growing a second notion of what it means
for a repo path to be in scope.

Sound only while `MAX_SUPPORTED_CROSS_DEPTH` is 1 — at depth 2 an out-of-scope
repo can sit between two in-scope ones — and that constraint is recorded at the
intersection.

Unscoped queries are byte-for-byte unchanged: `repoInSubgroup` answers true for
an absent subgroup, so the intersection is the whole set.

Mutation-verified: restoring the unfiltered predicate turns exactly the two
scoped cases red while the unscoped control and both in-scope guards stay green.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group): keep the preserved registry and the bridge from disagreeing

A total-failure sync refreshed contracts.json's diagnostic lists and left
meta.json alone. But meta.json, not contracts.json, is where runGroupImpact
reads completeness from — so the registry said "this sync could not read
app/backend" while a cross-repo query answered `{ cross: [], truncated: false }`.
Two surfaces describing the same run, one of them wrong, and the wrong one is
the machine-readable one an agent uses to license a delete.

The preserve path now refreshes the same two fields in the metadata. The
database stays untouched: it still holds the contracts being preserved, and
rebuilding it here would be the one write that could lose them.

Refreshing metadata is not free, though, and the obvious version of it is a
fail-open. The rewrite moves meta.json's mtime to now while bridge.lbug's stays
old, so an unstamped pair whose database is NEWER than its metadata — the shape
the write-order rule exists to reject — would come out of a preserve sync
passing the check. Writing "no stamp" does not help; the write-order comparison
is exactly what the moved mtime defeats. The verdict has to be recorded in the
metadata, because the refresh cannot avoid moving the mtime.

So `provenanceUnknown` is persisted whenever the existing pair does not already
check out, the existing stamp fields are carried through verbatim rather than
dropped, and `bridgeMetaMatchesFile` rejects the marker ahead of both the stamp
and the write-order heuristic. A pair that already matched is re-stamped
instead, which also upgrades a legacy unstamped-but-paired bridge to an exact
stamp. No preserve run can increase the number of pairs that pass the check.
The marker self-clears: `writeBridge` builds fresh metadata and never sets it.

`BridgeMeta` carries two reader-side fields documented as never persisted, and
this is the first code in the repo that reads metadata and writes it back. Both
are stripped explicitly before every write. `pairedWithDatabase` is the
dangerous one — persisted, it would tell every future reader the pair had been
verified — and a test seeds both on disk to pin that neither survives.

The write is not wrapped in a catch, unlike writeBridge on the success path.
There contracts.json is canonical and already written, so a stale bridge is a
recoverable degradation; here the write IS the guard against a confident wrong
answer, and swallowing its failure would reinstate the fail-open it closes.
`writeContractRegistry` above is unguarded into the same directory for the same
reason.

A group with neither file writes nothing: `readBridgeMeta` already answers
`version: 0` for an absent file, so a written one would say what the absence
already says while inventing state for a bridge that has never existed.

Mutation-verified three ways: dropping the marker write turns 6 red including
both laundering scenarios; moving the marker check below the stamp branches
turns the unstamped-laundering case red; removing the field stripping turns the
never-persisted test red. Each restored byte-exactly and re-verified.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group): report group_contracts' completeness in the shared vocabulary

`group_contracts` returned contracts and cross-links and said nothing about
whether that listing was the whole story. An agent reading it after a sync that
could not open half the group got a confident-looking list with no way to tell
it was a floor — the same fail-open the impact path already closed, on a surface
that had no channel for the answer at all.

It now returns the registry's two diagnostic lists and the structured triple,
folded through the same helper the impact and trace surfaces use, so the three
cannot drift. The helper takes no `BridgeMeta` precisely so this path — which
reads contracts.json and never opens a bridge — can share it.

The three registry states stay distinguishable, which is the point:
  - key absent: the registry predates the field and has no opinion about which
    indexes opened, so the key is omitted rather than invented as `[]`, and the
    listing reports a floor. It cannot say which repos the sync failed to read,
    so it cannot claim to be complete.
  - key present and empty: measured, clean, not truncated.
  - key present and populated: the repos, and a floor.

`incompleteRepos` is dropped on this surface alone: both lists it derives from
are returned verbatim beside it, and a third name for the same repos is drift
waiting to happen.

The import is lazy, matching `groupImpact` and `groupTrace` in this same class.
`cross-impact.js` statically pulls the native LadybugDB binding through
`bridge-db.js`, and `service.ts` is loaded by every `gitnexus group` subcommand
including ones that touch no database.

One fix inside the same file that this unit forced: the registry loader gated
`missingRepos` with a bare `Array.isArray`, which admits `[{repo:'x'}]`. That
was inert while nothing read the list, but this change both returns it and folds
it into the completeness answer — so an unreadable value would have been printed
as a repo name and would have flipped `truncated` on garbage. It now uses the
same `recordedRepoList` gate `group status` already applies to the same field.
`missingRepos` has always been required, so unlike `unreadableRepos` it has no
"not recorded" state to preserve and an unreadable value degrades to empty.

Mutation-verified: reverting the fold alone turns 14 tests red and leaves the
control — the contract and cross-link payload this tool has always returned —
green.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(cli): stop dropping group contracts' completeness fields on the way out

`group contracts --json` destructured `{ contracts, crossLinks }` from the
service payload and rebuilt an object from just those two. Everything else the
service returned was discarded on the way to stdout — so the completeness
fields the MCP tool now carries were invisible at the CLI, and the two surfaces
disagreed about the same registry.

It prints the payload whole now. A field added to the service reaches `--json`
without a matching edit here, which is the point: the re-serialized subset was
a second place that had to be remembered, and it was not.

The human-readable path gains the same signal in words. A listing built from a
sync that could not read part of the group shows counts that are a floor, not a
census, and it named neither fact. It now says so and names the repos when the
registry recorded them — and says the sync did not record which repos it could
read when it did not, because a listing that cannot say what it is missing is
still incomplete.

Mutation-verified: restoring the re-serialized subset turns the `--json` case
and the control red.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group): tell a missing registry entry apart from an unreadable one

`group status` printed MISSING for both "this repo has no row in the registry"
and "the registry itself could not be read", so an operator whose registry.json
was corrupt was told every repo was unregistered — and sent to re-register them
instead of to the one file that was actually broken.

The two are now separate. `missing` keeps its old meaning and still flags every
unusable repo, so an older consumer is unaffected; `unresolvable` is additive,
always present, and carries the reason that produced it.

This is the one caller that has to make that distinction, so it takes the
strict global-registry read. `readRegistry`'s `catch { return [] }` collapses a
malformed registry into an empty one, which is indistinguishable from a genuine
absence and is exactly what produced the wrong label. The cost is accepted
knowingly and recorded at the call site: the strict read rejects the whole
registry when any row fails to identify a repo, so one malformed row renders
every member unresolvable — including members whose own rows are fine. That is
the honest verdict, and it is reported as an unresolved state rather than a
clean one.

Choosing between the two labels needs to know whether a row exists at all,
which `registryIdentifies` answers by mirroring the two tiers the resolver
matches a bare group-config value on — registry name, case-insensitively, and
repo path. It deliberately stops short of the hashed-id and partial-name tiers:
those exist to be generous about what an operator typed, while this only picks
a label, and a looser match would relabel a genuine registry miss as an
unresolvable row — the same conflation this change removes, pointed the other
way.

The plan's third failure mode — a row that resolves but whose storage path
cannot be opened — turns out to be unreachable: `loadMeta` returns null on
every error and `checkStaleness` catches everything, so nothing after
`resolveRepo` inside the try can throw. The reachable per-repo case is
`resolveRepo` itself throwing, as it does for two registered clones sharing a
name, and that is what the tests drive end to end through the real CLI. The
code still handles the plan's case correctly if those helpers ever start
throwing.

Mutation-verified: reverting the split turns 6 unit and 2 CLI cases red while
both controls — a genuine miss, and a healthy group — stay green.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(cli): say what the preserve path actually does to contracts.json

The sync summary announced "Did NOT write contracts.json" on the branch that
writes it. The preserve path rewrites the file — keeping the previous sync's
contracts and cross-links, replacing only the two diagnostic lists — so an
operator who checked the mtime and found it moved was told the opposite of what
had happened, on the command this PR exists to make legible.

It now says the previous contracts were kept and names what changed.

The no-prior-registry branch is narrowed for the same reason. It claimed
nothing at all was written, and that is no longer true either: this path still
records the run against an existing bridge's metadata. The claim is now scoped
to contracts.json, which is the file it can actually speak for.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group): stop the total-failure log promising a preservation that did not happen

The warning fired before the prior registry was read, so it could only ever
promise one of the two things that might be true — and it promised the wrong
one to every group that has never synced: "keeping the contracts from the
previous sync" about a file that does not exist. The console line for that same
run, driven by `registryOutcome`, said the opposite.

It now lives inside the branch, after the read, with one message per outcome
chosen at the point the outcome is decided. The log and the console cannot
disagree, because the same fact selects both.

Both messages keep the warn level and the two repo lists.

Mutation-verified: reverting the split turns the no-prior-registry case red
while the preserved case — whose claim was already true — stays green. The
dry-run test's log filter was also widened to the sentence both messages share,
or the new wording would have made that assertion match nothing and pass
regardless.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group): make the bridge-failure warning describe what the code guarantees

The warning after a failed `writeBridge` promised that cross-repo impact would
report `truncated` until a sync succeeded. Nothing on that path produces that
signal.

The swap is the last step: `writeBridge` builds the new database in a staging
directory and only then moves the old one aside. A failure during the build
therefore leaves the previous sync's `bridge.lbug` exactly where it was, beside
the `meta.json` stamped for it — a pair that passes `bridgeMetaMatchesFile`
with the previous run's `unreadableRepos`. The next cross-repo query answers
`truncated: false` from superseded contracts, which is the opposite of what the
operator was told to expect, and worse than being told nothing.

The warning now says what is actually true: contracts.json is intact and
canonical, the bridge was not replaced, cross-repo queries may still answer from
the previous sync's contracts, and nothing marks them as superseded.

The metadata is deliberately NOT re-stamped to make the original promise true.
That would recreate exactly the metadata/database mis-pairing the stamping on
the preserve path exists to prevent, and the comment at the warning records it.

The claim is asserted against captured log output rather than left to the state
tests. Those check which pairs match and what the preserve path writes; every
one of them stays green while this sentence reverts to promising a truncation.
An unasserted user-facing branch is the defect class this change is closing, so
it does not get to close it while remaining one.

No filesystem shape makes the real `writeBridge` fail while
`writeContractRegistry` succeeds — they write into the same directory one line
apart — so the failure is armed through a pass-through wrapper on the file's
existing mock. It delegates byte-for-byte unless a test arms it, and is reset
around the new suite.

Mutation-verified: restoring the original wording turns its own assertion red
and nothing else.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* docs(mcp): name every registry outcome group_sync can actually return

The tool's description told agents `registryOutcome` is 'written' or
'preserved'. It has a third reachable value: 'no-prior-registry', returned when
nothing could be read AND there was no previous contracts.json to carry
forward. An agent calling this tool against a group that has never synced got a
value its own tool description said did not exist, and no way to tell it apart
from the case where the previous contracts survive.

The distinction is the whole point of the value. After 'preserved' there is a
registry to read — stale, but real. After 'no-prior-registry' there is nothing
on disk at all, so a following group_contracts or group_impact has no registry
rather than an old one. Those need different responses from the caller.

'not-attempted' stays undocumented because it is unreachable through this tool,
and a guard asserts it stays that way.

The code comment above the annotations claimed the preserve path does NOT write
contracts.json. It does — it rewrites the file, keeping the previous contracts
and cross-links and refreshing only the two diagnostic lists, which the CLI's
own summary was corrected to say a few commits ago. Left alone it would have
re-seeded the same wrong claim next to the text that now states it correctly.

Mutation-verified: deleting the 'no-prior-registry' sentence turns the guard red.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* docs(mcp): explain structural incompleteness on the impact tool and status resource

The impact tool's GROUP MODE paragraph described one cause of truncation — the
fan-out running out of room — and left an agent to assume that was the only one.
So a `truncated: true` carrying `truncationReason: 'incomplete-sync'` read as
"retry with a smaller scope", when retrying returns the identical floor forever:
the repos are absent from the bridge itself, and only a re-sync puts them back.
The old text also said the response carries the truncation fields "when it stops
early", which is wrong for that case — `truncatedRepos` names repos even when
ZERO crossings to them were attempted, because their contracts were never in the
bridge to cross to.

The paragraph now branches on the reason and gives each its remedy: 'timeout'
and 'partial' are runtime limits where a retry or a larger budget can help;
'incomplete-sync' is structural and the remedy is `group_sync`.

The reason union is now derived from an exported `as const` array rather than
written as a bare type. A type-only union gives a guard nothing to enumerate, so
the guard has to hand-list the members — and then it passes forever the moment a
fourth is added, which is the exact regression it exists to catch. The guard
iterates the runtime array instead. Verified by appending a probe member and
watching it go red, then removing it. The resolved type is unchanged; every
importer uses `import type` and none needed an edit.

The status resource said "Group index / contract staleness" and nothing about
the distinctions its payload now carries. It explains all of them: a repo absent
from the registry versus one whose entry could not be resolved, and the
`unreadableRepos` tri-state where an ABSENT key is not an empty one — absent
means the last sync never recorded what it could read, so cross-repo answers for
that group are a floor.

The description an MCP client actually receives lives in `getResourceTemplates`,
not in the context resource's inventory line the plan pointed at. Both now carry
the vocabulary, so the two surfaces cannot disagree about the same payload.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(group): serialize group syncs behind a fail-closed per-group lock

Two concurrent syncs of one group could lose one another's writes. Both read
the prior registry, both built contracts, both wrote — last writer won, and the
loser's work was gone with nothing reporting it. A group sync is long and
expensive and is exactly the operation whose lost update destroys contracts.

`syncGroup` now takes a lock for the whole persist section, acquired exactly
once. `acquireIndexLock` is not reentrant, so a second acquisition anywhere
below would deadlock the happy path rather than an edge case; `withGroupSyncLock`
has one call site and nothing inside it re-acquires.

The lock lives on a dedicated `sync-lock` directory inside the group directory,
mirroring the registry lock's dedicated directory rather than reusing the
resource's own — a lock directory that could collide with a per-repo index slot
repeats a bug the registry lock's comment already warns about.

It fails CLOSED, which is the opposite of `withRegistryLock` and deliberately
so. That one degrades to unlocked because it guards a sub-second JSON merge on
a latency-critical path; here running unprotected is the outcome the lock
exists to prevent. Three exits are covered: a timeout, an unwritable lock
directory, and the lock-free degradation the primitive performs silently.

That third exit needed a change in `index-lock.ts`, and it is the one declared
exception to keeping this work inside core/group/. `acquireIndexLock` answers a
read-only or permission-denied filesystem with a no-op handle that is
byte-identical in shape to a real one, so a caller for whom lock-free is not an
acceptable outcome could not tell the difference. It now carries an optional
`lockFree` marker. The change is additive by construction: no signature moves,
no control flow changes, nothing about when or how a lock is taken changes, and
every caller that ignores the field behaves exactly as before.

A filesystem probe inside the group module was considered and rejected on
evidence: `selectBackend` returns `socket` on Linux and Windows, where
`acquireViaSocket` never touches the filesystem and this branch cannot occur —
so a probe would refuse syncs on the two platforms that never degrade while
missing the one that does.

The timeout ceiling is a named 600s constant passed explicitly. The magnitude
matches the primitive's own analyze-sized default because a group sync is
analyze-shaped and a legitimately queued second sync must be able to wait out a
full first one. Passing it explicitly is about the override, not the magnitude:
`resolveTimeoutMs` resolves `GITNEXUS_INDEX_LOCK_TIMEOUT_MS <= 0` to Infinity,
which would turn fail-closed into a hang.

Cross-process exclusion is proved with a real spawned holder, not an in-process
mock, which cannot demonstrate the property this exists for. The lock-free
scenario pins `GITNEXUS_INDEX_LOCK_BACKEND=file` — unpinned it would pass on
two of three platforms while measuring nothing — and produces the failure by
injecting EACCES on one syscall rather than by chmod, so it runs identically on
Windows instead of being skipped there.

The CLI reports the failure through pino rather than a bare stderr write, which
this package lints as an error to keep that migration moving, and the test reads
the `msg` field rather than a raw substring — matching on the raw text would
have passed only by accident of quoting and would go green again if the line
were downgraded.

Nothing is skipped on any platform, and the test is registered for the
cross-platform shards.

Mutation-verified: removing the lock acquisition turns 6 scenarios red;
removing the lock-free rejection turns the degradation scenario red on its own.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group): make the sync-lock timeout name a cause it can establish

The fail-closed lock surfaced the primitive's own timeout message to users for
the first time, and that message says the wait was on "another gitnexus
analyze" — a cause its detection path cannot establish. It is the same
confident-about-what-it-could-not-determine claim this PR exists to remove,
inherited rather than written.

The wrapper now throws its own. It names the group, the lock directory, the
operation, and the elapsed wait, and it says plainly that nothing was written.

The holder clause branches on `holderKnown`. The socket backend exposes no owner
metadata and reports a placeholder pid of -1, so on that backend — and on the
file backend's malformed or vanished-lock timeouts — the message says the lock
stayed held but the backend cannot identify who held it, rather than printing a
pid that means nothing.

The elapsed wait is measured by the wrapper. `IndexLockTimeoutError` carries
only `holder` and `holderKnown`; the figure exists solely inside the string
being replaced, so it had to be taken rather than read.

One pre-existing assertion changed with it: the timeout case asserted
`'Timed out after 600000ms'` from the inherited text, which is precisely the
message this replaces.

Mutation-verified: restoring the inherited message turns the three assertion
cases red and leaves the control — a real acquisition that succeeds — green.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group): stop a losing sync from downgrading the one that beat it to the lock

Serializing is not ordering. Both syncs run extraction outside the critical
section, so a total-failure sync that acquires second reads the winner's fresh
registry as `prior` and rewrites it with all-unreadable lists. The lock alone
does not prevent that — it only decides who goes second, and the loser then
overwrites a healthy registry with a description of its own failure.
Deterministically, not as a rare interleave.

The guard is a compare-and-swap on the registry file's own identity: stat
before acquiring, re-stat after, and write nothing when they differ. Identity is
presence plus size, mtime and inode — `writeContractRegistry` publishes through
write-then-rename, so a real replacement always changes the inode even if size
and mtime happen to collide.

Deliberately NOT keyed on `generatedAt`, for two independent reasons. It is
stamped when the registry object is built, before the lock is acquired, so a
winner that waited would write a value older than the loser's start. And the
preserve path carries it forward verbatim by design — it dates the contracts,
not the write — so after any preserve sync it does not date the write at all,
leaving the comparison blind on exactly the pairing this guards. A file-identity
compare also needs no cross-process clock agreement.

The skip reports the existing `preserved` outcome. Nothing was written and a
prior registry was kept, which is what that value already means; a new one would
falsify the guard asserting the sync tool's description names every reachable
outcome, and would fall through the CLI's outcome chain, which has no fallback.

The bridge metadata refresh is skipped too, which the plan did not specify.
`refreshPreservedBridgeMeta` stamps THIS run's repo lists into meta.json, and
meta.json is where cross-repo impact reads completeness — so writing it would
report as unaccounted-for exactly the repos the winning sync had just accounted
for. That is the same downgrade being refused, one file over. Skipping both is
what makes `preserved` an honest answer here.

Mutation-verified: removing the after-stat and the skip turns the three decisive
cases red while both non-misfire controls stay green.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* refactor(group): run the bridge swap inside the caller's critical section

The bridge swap needed the group lock, and could not take it: `syncGroup`
already holds it when it calls `writeBridge`, and `acquireIndexLock` is not
reentrant. Acquiring inside the swap would deadlock every sync on the happy
path rather than on an edge case.

So the body splits the way this repo already splits this shape — a lock-free
`writeBridgeUnlocked` whose precondition is that the caller holds the lock, and
a thin `writeBridge` wrapper that acquires it for direct callers, mirroring
`registerRepoUnlocked` / `withRegistryLock`. `syncGroup` calls the inner one;
everything else keeps calling `writeBridge` and is now serialized by it.

`writeBridge`'s exported signature is byte-identical to before, so no caller
changed and nothing about the exported surface moved.

The precondition is enforced by a comment naming the single production call
site, which is what the existing precedent does. A type could carry it, but the
repo's own answer to this question is a comment, and diverging here would make
this the odd one out for no additional guarantee.

`refreshPreservedBridgeMeta` is deliberately left unsplit. Its one caller is
already inside the critical section and it has no test callers, so an acquiring
wrapper would be dead code standing in for a guarantee the caller already
provides — and moving the lock inside it would be the second acquisition this
change exists to avoid.

Scope: this delivers writer-writer exclusion only. The reader-side promotion of
a leftover `.bak` into place runs on ordinary reads, outside any lock, and is
not claimed here — the pairing check remains the reader's defense. Confirmed as
live behavior while writing the crash-recovery test, which asserts on file
state rather than through `bridgeExists` for exactly that reason.

One test file beyond the two the unit named had to change: a suite mocks
`bridge-db` to inject a `writeBridge` failure and exercise the bridge-write
warning. Once the sync calls `writeBridgeUnlocked`, that fault was being
injected into a function the path no longer calls, and the test went red. The
mock is repointed.

Mutation-verified three ways. Pointing the sync back at the acquiring wrapper
deadlocks a single UNCONTENDED sync — the evidence that the nesting defect is
real and that this split is what prevents it. Removing the wrapper's
acquisition turns the direct-write exclusion case red. Making the lock-free half
acquire for itself turns the held-lock case red.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(hygiene): reach every tracked text file with the raw-byte guard

The guard claimed to protect tracked source from a raw NUL — the byte that
makes git classify a file binary and costs it its diff, its inline comments and
its three-way merge on GitHub. It matched on an end-anchored extension regex
covering the JavaScript family, so most of what this repo tracks was never
looked at: JSON, YAML, TOML, Markdown, snapshots, SQL, protobuf, the .NET
project files, the shell and batch scripts.

Worse, an extension regex cannot reach a file that has none. `Dockerfile`,
`CODEOWNERS`, `LICENSE`, the husky hook and every bare dotfile were unreachable
by construction — no amount of widening the pattern would have covered them —
so a second basename filter had to exist for the claim to be true.

It stays an allowlist rather than becoming "everything git tracks", because the
repo legitimately tracks binaries whose extensions must stay out.

The two filters together now collect every one of the 5000 tracked files except
31 — the 30 native prebuilds and one PNG — and those 31 are exactly the files
that carry a NUL. The allowlist no longer has a gap that is not a genuine
binary.

The planted-fixture cases route through the collector's own predicate rather
than straight into the scanner. The pre-existing fixture test bypassed the
filter entirely, so it could only ever prove the byte locator worked, never
that the collector would hand it the file — which is precisely how the gap
survived.

Mutation-verified both ways: removing the basename filter drops `.gitignore`
and `Dockerfile` from the planted results, and reverting the extension regex
drops `.json` and `.md`.

One added case is a preservation pin rather than proof — that tracked binary
formats stay out passes either way, and guards the allowlist from becoming a
denylist later.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(hygiene): stop the byte guard reading the vendored grammar tree

Widening the guard to every tracked text format also pulled in the vendored
tree-sitter grammars, and those are where the bytes are: four generated
`parser.c` files come to 62 MB between them, Kotlin's alone 33.7 MB. Excluding
that root drops 76 files but 66% of the bytes the scan reads — 97 MB down to
33 MB.

The exclusion is a single anchored prefix, matched case-sensitively with
`startsWith`, and both halves of that matter. A `vendor` path-SEGMENT match
would also drop first-party fixtures this repo tracks under directories named
`vendor` and `Vendor` — a Kotlin one, a PHP one, and three files under
gitnexus-web — silently narrowing coverage while the assertion pinned the loss
in place. Case-insensitivity would do the same to a `Vendor` directory at the
excluded root's own level.

The root is named in the guard itself, so the claim that it covers every
tracked text file stays honest about the one place it deliberately does not
look.

The cost comment was wrong and is now measured rather than estimated. It said
"the scan is ~10 ms" — ambiguous between locating the byte and reading the
files, and stale in its byte basis. Locating is ~14 ms; the reads dominate it
by two orders of magnitude, which is the actual reason for the concurrency pool
and the actual reason this exclusion is worth having. Every figure was
re-derived from the finished file rather than carried over from a draft.

The header's claim that `git ls-files` "never descends into vendor" was already
false — vendored code is tracked, so all 106 of its files were being reported
and read. Corrected here, where the distinction becomes load-bearing.

Registered in the cross-platform list first and given a shard weight second.
The weight table is only consulted for files already in that list, so a weight
entry alone is inert and the shard test filters unregistered keys without
complaining. The three-way split stays within 1.01x of ideal.

Mutation-verified three ways: a case-insensitive segment match, a
case-sensitive segment match, and a case-insensitive anchored prefix each turn
an assertion red.

The casing half was initially unfalsifiable — nothing tracked is named
`gitnexus/Vendor/`, so a tracked-set assertion could not distinguish it. Rather
than leave the claim unpinned or invent a fixture, it is pinned on the
predicate with a synthetic path; the tracked-set assertions pin the anchoring.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(group): make the strict-read test able to see which read ran

The file bound both registry exports to one mock:

    readRegistry:       (...args) => readRegistryMock(...args),
    readRegistryStrict: (...args) => readRegistryMock(...args),

so the case named for the strict read asserted a behavior it could not
attribute. Point the production call at the lenient export and every assertion
still holds, because the mock answers the same way whichever one is called.

That is not a hypothetical. With this file as it was, and `syncGroup` mutated to
call `readRegistry` instead of `readRegistryStrict`, all 32 tests passed — the
suite was blind to the exact substitution it exists to prevent, and the fix it
guards could have been reverted without a single red.

The exports now have separate mocks: the lenient one always resolves an empty
list, which is its real contract, and only the strict one is armed by the cases
that need a failure. The named case also asserts directly that the strict read
was called and the lenient one was not, so the attribution is explicit rather
than implied by an outcome.

No tests added — the unit is about what the existing ones can see.

Mutation-verified: the same substitution now turns 24 cases red, including the
named one, and everything stays green unmutated.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(group): pin the CLI output branches this PR introduced

The three sync outcomes and the status table's new labels had no assertions.
Every one of them is a sentence about what happened on disk, and this PR
corrected several that were false — a preserve branch that announced it had not
written the file it rewrites, a status table that called an unreadable registry
a missing entry. Text that describes state, with nothing pinning it, is how
those got wrong in the first place.

Six cases drive the real CLI end to end, through the two shapes that need no
indexed repo: members absent from the registry, and members registered at a
storage path with no index file, which makes every repo unreadable. The file
header claimed no LadybugDB-backed command was driven end to end; that is no
longer true and it now says so.

Each branch was suppressed in turn and its assertion goes red — all five that
the plan named.

One of those mutations first reported PASS, and the cause is worth recording: the
string being suppressed also appears inside a neighbouring branch's comment, so
the harness silenced the wrong line. That is a bad mutation, not a weak test.
The harness now asserts the marker it suppresses is unique before trusting the
result, and the redone check goes red.

The plan's sixth scenario is already covered by an existing case that asserts
both labels in one table, so it is not duplicated. A seventh case was added
beyond the plan: without a populated-list case, "prints neither line" would pass
just as well against a CLI that never printed that line at all.

Adds about 15s of measured spawn time locally; CI runs these against the built
dist, which is materially faster per spawn.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(group): assert the MCP payloads by exact shape, not by partial match

Nothing asserted what the group tools actually return. The sync response's
unreadable list and registry outcome, and the contract listing's incompleteness
fields, are documented in the tool descriptions an agent reads — and could have
been dropped in a refactor without a single test noticing.

The assertions are exact-shape rather than partial. A `toMatchObject` would let
a dropped key pass, which is precisely the regression these exist to catch: the
failure mode is an absent field, and a partial match is defined not to see one.
Absences are additionally asserted explicitly.

The tri-state has to survive the response boundary, and it is the reason exact
shape matters here more than usual. An absent `unreadableRepos` means the sync
never recorded what it could read, so the listing is a floor; an empty list
means it measured none; a populated list names them. Collapsing absent into
empty turns "we do not know" into "we checked, it is fine" — so a mutation that
replaces the conditional spread with `?? []` is covered specifically, not just
the outright deletion.

Mutation-verified per field: removing either sync forwarding line, deleting the
conditional spread, replacing it with the invent-empty form, dropping the
truncation triple, or hardcoding the provenance flag each turns an assertion
red.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* docs(group): stop the bridge input narrowing what unreadableRepos means

The same field had three definitions. The registry and the bridge metadata both
say it covers a repo this sync could not extract from — an index that would not
open, or an extractor that threw partway through, one bucket because the
consequence is one thing. The bridge input said only "whose index could not be
opened", which describes one cause and silently excludes the other.

It now points at the registry's definition instead of restating it a third
time. A definition written once and referenced cannot drift; three copies of it
already had.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* docs(group): record what the mtime pairing does and does not prove

The write-order fallback is a heuristic standing in for provenance, and a
future reader deciding whether to lean on it needs to know where it breaks
before they do. Both directions are now stated where the function is read
rather than only in the plan that introduced it.

The false-accept direction is a non-monotonic wall clock — mtime is realtime,
so an NTP step back, a snapshot restore, or container skew between the two
writes can leave a mis-paired set reading as ordered. Coarse filesystem
granularity is explicitly called out as NOT being that hazard, because it looks
like it: it collapses a pair written together to equal times, and equal is
accepted, which is the right answer for that pair.

The false-reject direction is any copy or restore that rewrites the database's
mtime after the metadata's. An intact legacy pair is demoted to a lower bound
and stays there until a sync re-stamps it, because nothing on the read path can
tell it apart from the swap window it imitates.

That second direction corrects a claim made while planning this work: that the
rule could only ever demote pairs already broken. It cannot. `cp -r` and
`rsync` without timestamp preservation both produce it on a healthy group, and
saying otherwise where the code is read would leave a future reader to discover
it the hard way.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(storage): stop a corrupt registry quoting its own bytes into errors

`JSON.parse`'s SyntaxError embeds a window of the source around the failure —
V8 gives exactly ten characters either side — and the strict read rethrew it
untouched. The registry persists HTTPS remote URLs with their userinfo, so a
file that breaks next to one puts the credential into the error:

    Unexpected token 'L', ..."end.git"},LEAKCAN4RY"... is not valid JSON

The parse now has its own guarded region and reports the path and the failure
class, matching the two corrupt-registry errors already in this function.

The original error is discarded — not logged, not attached as `cause`. This
codebase's convention elsewhere is to hand the logger the Error so it captures
stack and cause, and following that convention here is precisely what would put
the byte window into the log. Under MCP stdio that log is written to the
client's log file on disk, so the thrown-error channel was never the only one
that mattered. The `catch` takes no binding, so the error cannot be reused by
accident later.

That was not theoretical: a sibling commit routes this message into
`unresolvableReason`, which `group status` returns to MCP clients and prints in
the CLI table. Every channel was traced — throw, cause, inspect with the full
chain, the logger, and both downstream consumers.

The leaking shape is narrower than it first appears, and worth recording. The
windowed message only fires when the parser fails at a value-start or trailing
position; a break inside a quoted string yields an unterminated-string error
carrying no window. So a plain mid-URL truncation does not leak — a short write
landing over a longer one does, leaving a URL fragment where a value was
expected. That is a reachable shape for the one machine-wide file every
gitnexus process writes.

The test asserts the message still names the path and the corruption class, not
only that the secret is absent. Asserting absence alone would stay green if the
message became empty.

Mutation-verified: restoring the raw rethrow brings the token back verbatim.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* docs(storage): drop the stale lenient call-site count

The docstring said keeping `readRegistry`'s signature untouched leaves "its
nine other call sites" unaffected. There were thirteen when the discrepancy was
noticed and fourteen by the time it was fixed. The same figure appeared in the
test file's header.

Replaced rather than corrected. A count in prose next to code that moves is a
claim that goes stale without anything failing — which is the defect class this
change set exists to remove, so re-seeding a fresh number would be repeating it
with a longer fuse. The argument was never about the quantity: leaving the
signature alone keeps every lenient caller provably unaffected whether there is
one or fifty.

Also withdrawn while here: the claim that the bridge schema-version guards
diverge between call sites. They do not — the two forms are complements for
every value a writer can produce, there are three sites rather than the two
claimed, and all three agree. Recording a divergence that does not exist would
leave a future reader chasing it.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* docs(group): add an auditable finding-to-commit map

The Definition of Done claims every review finding has exactly one commit and
that reverting it reintroduces that finding and no other. Without a map that
claim is only checkable by whoever holds the review report, which is one person
for a short time.

The map lists all 28 primary findings against their commits, the three findings
whose suggested fix was deliberately not implemented and what shipped instead,
and the four defects found while executing that no reviewer raised.

It also records the revert contract honestly. Revertability is
dependency-aware, not absolute: the shared completeness helper has three
consumers, so reverting it alone does not build. That coupled set is named
rather than left for someone to discover mid-revert.

Two sections exist because the work produced them, not because the plan asked.
Six claims in the plan turned out to be contradicted by the code — among them a
scope predicate that would have reintroduced the bug its unit was closing, and
an assertion about the mtime rule that was simply wrong. Recording only the
findings would leave the impression the plan was followed as written. Five
residual risks are listed for the same reason, including that R14 is not met on
this PR: the diff attribute works locally but GitHub reads it from the base
side, so this PR's own sync.ts stays binary in the web view and every PR after
it renders as text.

Not under docs/ — that path is gitignored, so a map written there would never
reach the PR and the audit it exists for could not be performed by anyone else.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group): read a version that is not a version as no provenance

Raised by the check bot on this PR, and real — the bot found one symptom of it;
the field splits four gates apart, not one.

`readBridgeMeta` accepted any numeric `version`, and `0` is this file's word for
"no provenance". A parseable but impossible value — negative, fractional — is
not a schema version, and each gate that reads the field disagreed about it:

  ensureBridgeReady      `> 0 && !== CURRENT`  → opens the bridge
  openBridgeDbReadOnly   `> 0 && !== CURRENT`  → opens the bridge
  bridgeExists           `=== 0 || === CURRENT` → says it is not there
  bridgeProvenanceUnknown `=== 0`               → reports the answer complete

Four verdicts about one file, and the last one is a fail-open of exactly the
class this PR exists to close: a bridge nothing can vouch for, reported as
fully accounted for.

The suggested fix was to widen the provenance check to `<= 0`. That closes the
reported symptom and leaves `bridgeExists` still disagreeing with both openers,
so it is fixed at the reader instead: a version that is not a positive integer
normalizes to the sentinel the gates were all written against. One change, four
gates agreeing by construction, rather than teaching each of them the same new
case and hoping the fifth reader remembers.

Infinity is covered too, though by the pre-existing type check rather than the
range one — JSON cannot carry it, so it arrives as `null`. Recorded at the test
so the case is not mistaken for proof of the range check.

Mutation-verified: restoring the loose numeric check turns the negative and
fractional cases red.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group): stop a malformed contracts.json reading as an unresolvable registry entry

Raised by the check bot on this PR. Its stated mechanism was wrong — `loadMeta`
returns null on every error and `checkStaleness` catches everything, so neither
can throw — but its conclusion was right, and there is a concrete path it did
not name.

`readContractRegistry` is a bare `JSON.parse(content) as ContractRegistry` with
no shape check, and the snapshot lookup guarded only the registry object:

    registry?.repoSnapshots[repoPath]

The `?.` covers `registry` being null, not `repoSnapshots` being absent. A
contracts.json without that field — a legacy file, a hand-edit, a truncated
write — throws `TypeError: Cannot read properties of undefined`, which lands in
the catch that labels failures as unresolvable GLOBAL-registry entries. So a
group whose own contracts file is malformed reported every repo as a broken
registry row, sending the operator to repair a file that was fine.

An error from one cause presented as another, which is the defect this PR has
been removing everywhere else.

The optional chain closes the crash. The try is also narrowed to the call that
earns the label: only `resolveRepo` sits inside it now, so "did not resolve"
describes something that actually failed to resolve rather than whatever else
happened to throw nearby. The comment records why the other two calls in that
block cannot throw, so the next reader does not have to re-derive it.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* refactor(group): give the completeness fold a module no native binding reaches

The shared fold ended up in `cross-impact.ts`, which statically imports
`bridge-db.ts` and through it the native LadybugDB binding. `groupContracts`
therefore reached it through `await import('./cross-impact.js')` — loading that
whole module graph to run a Set union and a ternary. Measured: 44-51ms and
8.4MB of RSS on first call, paid once per MCP server and once per
`gitnexus group contracts` invocation.

`completeness.ts` holds the vocabulary and the fold and imports nothing but
types. `service.ts` imports it statically; the lazy import and the comment
justifying it both go. `cross-impact.ts` re-exports so the three surfaces still
have one import site for the vocabulary.

Three other duplications collapse into the same move.

`traceCompleteness` was hand-writing `{truncated, truncationReason,
riskEpistemic}` — a third writer of the pair `truncationFields` exists to keep
mechanically linked (#2787), in the file the consolidation had just touched. It
calls the helper now.

`recordedRepoList` existed twice, byte-identical, one copy's docblock saying it
mirrored the other. That gate is the predicate the whole
absent-vs-empty-vs-populated distinction rests on, applied to the same two
lists on both the registry and the bridge — tightening one copy would have
fixed one surface silently. One definition now.

The trace's scope predicate compared repo paths with `===` while its sibling in
`cross-impact.ts`, added in the same change, went through `repoInSubgroup` with
a comment about not growing a second notion of membership. It had grown one:
the helper normalizes separators and strips trailing slashes, so the same
group.yaml spelling could be in scope for impact and out of scope for trace.

Also here: `registryIdentifies` was a third, weaker copy of the registry's path
rule — it skipped `realpath`, so a symlinked row would not match where the real
resolver would. It uses `canonicalizePath`/`registryPathEquals` now.
`contracts.json` is no longer respelled as a literal in `sync.ts`; `storage.ts`
owns the name it reads and writes. And the runtime-truncation predicate is
bound once instead of written out at both the flag and the reason, where
forgetting the second would label a retry-able answer `incomplete-sync`.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(group): give the lost-the-race sync its own outcome instead of overloading preserved

A sync that finds contracts.json replaced while it waited for the lock reported
`registryOutcome: 'preserved'`. That value already meant something else, and the
two differ in exactly the thing the value is for: `preserved` rewrites the file
with this run's diagnostics; this path does not touch it and deliberately does
not record them.

So both surfaces stated something false about disk. The tool description told
agents `preserved` means "contracts.json was rewritten ... refreshing only
missingRepos/unreadableRepos to describe THIS run (the file changed)". The CLI
said "only the unreadable/missing repo lists were refreshed to describe THIS
run". On the lost-race branch nothing was written and the log line beside it
says so outright.

That is the defect class this whole change set removes, reintroduced by the
change set itself — and the reasoning recorded at the time makes it worse, not
better: a new value was rejected because it "would fall through cli/group.ts's
outcome chain, which has no fallback branch". A renderer limitation decided a
domain value, and the description then had to cover two states with one
sentence that fits one of them.

`superseded` is its own outcome now, described in its own words to agents and
rendered in its own words at the CLI. The registry on disk is FRESHER than this
response's diagnostics, which is the opposite of every other non-written
outcome and is why an agent needs to tell them apart.

The CLI renders from a `Record` keyed on the union, so the next outcome fails
the build here rather than printing nothing — the gap that made folding the
state in look like the cheap option.

The description guard is scoped per clause rather than over the whole string.
It forbade "untouched" anywhere, which was right when one clause could only lie
in that direction and wrong now that another clause is accurately untouched. It
also asserts the superseded clause says so, or the two collapse back into one
word for two states.

Found by the quality pass over this branch, not by review.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(group): read bytes and stat through one handle, not two path lookups

CodeQL flagged both sites as `js/file-system-race`, high severity, and it is
right about the shape. `stat(path)` followed by `readFile(path)` is two
independent path resolutions with a window between them — the classic
check-then-use race.

It also made the assertions weaker than they read. These two tests exist to
prove a specific file was left untouched, and two lookups can land on different
inodes, so "the bytes and the mtime are both unchanged" was not actually a
statement about one file. The distinction is the whole point here rather than a
technicality.

`snapshotFile` opens the path once and takes both answers from that handle. The
race is gone because there is no second lookup, and the assertion now genuinely
concerns one inode.

I had previously triaged these as below the ruleset's threshold and left them
for the repository owner. That was wrong: they carry
`security_severity_level: high`, and the branch ruleset gates on
`high_or_higher`, so they were blocking the merge rather than sitting under it.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

---------

Co-authored-by: Claude Opus 5 (1M context) <noreply@anthropic.com>
Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
2026-08-26 09:37:16 +01:00
Gergő Magyar
d540b00184
fix(check): stop reporting erased and deferred imports as initialization cycles (#2934)
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2026-08-12 17:09:32 +00:00
Gergő Magyar
2be508e796
fix(mcp): stop scaling the detect_changes query with the diff's hunk count (#2915) (#2930)
* fix(mcp): map diff hunks to symbols without per-hunk OR conditions (#2915)

`detect_changes` folded one `(n.startLine <= $hunkEndI AND n.endLine >=
$hunkStartI)` pair per diff hunk into a single WHERE clause, one query per
changed file. A machine-generated file (cache JSON, lockfile, golden fixture)
diffs at thousands of hunks with `-U0`, and the expression tree that produces
overflows LadybugDB's recursive evaluator copy on a TaskScheduler worker
thread: a bare SIGBUS with no error output where secondary threads get 512 KB
of stack (macOS), a swallowed 30s query timeout where they get more (Linux),
which the CLI then printed as "No changes detected." with exit 0.

Coalesce each file's hunks into sorted, disjoint ranges and run the overlap
test in JS instead. Only ranges that overlap or abut are merged, so the union
covers exactly the lines the raw hunks covered. Query text and parameters are
now identical whether a file changed in 1 place or 100,000, and files are
queried in batches of 100 rather than one full node scan each.

Reproduced on Linux by running the engine with macOS-sized (512 KB) thread
stacks: 2,500 hunks passed, 3,333 and 4,000 segfaulted — matching the reporter's
macOS threshold table. After the change the same repo maps a 100,001-hunk diff
in 2.1s with no crash.

Also fixes a line-base mismatch the rewrite exposed: graph rows are 0-based
(#2377) while git hunk lines are 1-based, so the raw comparison shifted every
symbol one line up. An edit to a symbol's LAST line reported nothing changed —
a one-line function whose body was edited was invisible to the pre-commit gate.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_019d85r7TrMYjWbTUT3pXccS

* fix(cli): say when a detect_changes result is partial (#2915)

When a graph query fails, `detect_changes` swallows the error, sets
`partial: true` and leaves the counts at zero (#2283). The CLI formatter never
read that flag, so a degraded run printed "No changes detected." and exited 0 —
the pre-commit safety gate reporting a clean bill of health for a check that
did not complete. Print the partial note in both the empty and non-empty
branches.

Also restore the `Symbol` placeholder for rows whose label came back as an
empty string: the changed-symbol mapping now keeps `''` instead of dropping it
to undefined, so the formatter needs `||`, not `??`.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_019d85r7TrMYjWbTUT3pXccS

* refactor(mcp): bound the hunk→symbol query and simplify the overlap helpers (#2915)

Cleanup pass over the #2915 fix. No change to which symbols detect_changes
reports, except that a node matched by two changed paths is now reported once.

* Push a per-file [lo, hi] span into the query. Coalesced ranges are sorted and
  disjoint, so a file's whole touched span is free, and the engine can drop the
  symbols outside it instead of shipping every row in the file across the native
  boundary. Measured on a 400-file batch against a 25k-node index: 546ms/13,870
  rows before, 84ms/1,555 rows after, identical kept set. Depth stays constant
  (two comparisons per file, not per hunk), so #2915 cannot come back — the JS
  test still rejects symbols landing in the gaps between hunks. The struct-list
  parameter was verified against @ladybugdb/core 0.18.3 and 0.19.1.
* Convert hunks into the graph's 0-based space once, at the point they are
  grouped, with the existing `toZeroBasedLine`. Every comparison downstream is
  then base-neutral, and `toDisplayLine` goes back to being what its doc says it
  is: an MCP response-boundary converter, not a filter input.
* Deduplicate matched nodes by id. `ENDS WITH` is a plain string suffix, so a
  diff touching both `README.md` and `pkg/README.md` counted the same node
  twice (169 duplicates in 13,870 rows on a real 400-file diff). Pre-existing,
  free to fix now that the rows are shaped in one place.
* Drop the positional `?? sym[N]` row fallbacks in this block.
  `executeParameterized` returns `getAll()` rows, which are alias-keyed objects,
  so the fallbacks were dead — and they coupled the mapping to RETURN column
  order, which is what made adding a column a renumbering exercise.
* Build the path→hunks map in one pass, so "every value is coalesced" holds at
  every point rather than being repaired by a second loop. Simplify
  `coalesceHunks` (the length<2 branch and the sort tiebreaker changed nothing)
  and state `hunksOverlapRange` as a standard half-open lower bound.
* Document `partial` in the detect_changes tool description. The CLI now prints
  it, but the MCP client — the main consumer of the pre-commit gate — was
  getting the flag as an undocumented raw key.
* Tests: pin the query text as identical for a 1-hunk and a 3,000-hunk diff
  (replacing a magic length bound), pin the 0-based bounds parameter, pin the
  dedup, and fold two near-identical row mocks into one helper. Temp dirs now
  come from the shared pool helper, whose cleanup is per-directory and
  Windows-lock aware.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_019d85r7TrMYjWbTUT3pXccS

* feat(mcp): bound and batch the hunk→symbol query, and anchor its path match (#2915)

Follow-up review pass on the #2915 fix, implementing every remaining finding.

* Push a per-file `[lo, hi]` span into the query. Coalesced hunks are sorted and
  disjoint, so a file's touched span is free, and the engine drops the symbols
  outside it instead of shipping every row in the file across the native
  boundary. Measured on a 25k-node index, 400-file batch: 546ms/13,870 rows
  before, 84ms/1,555 after, identical kept set. Depth stays constant (two
  comparisons per file, not per hunk), so #2915 cannot return. The struct-list
  parameter was probed against @ladybugdb/core 0.18.3 and 0.19.1 first; the
  index-subscript form `$paths[i]` does not parse.
* Anchor the path match: `n.filePath = b.path OR n.filePath ENDS WITH b.suffix`
  where suffix is the path with a leading separator. A bare `ENDS WITH` is a
  plain string suffix, so a diff touching `lib/a.py` also reported a symbol from
  an indexed `src/mylib/a.py` — a file the diff never touched. This is the form
  `explain` already uses. Pinned by an integration test against a real engine
  (it fails 3/3 with the un-anchored predicate).
* Run batches a few at a time. `executeParameterized` checks a connection out of
  the 8-connection per-repo pool for the duration of a query, so parallel calls
  never share one — the same reason ~15 other queries in this file already run
  under `Promise.all`. `allSettled`, so one failed batch degrades the result to
  `partial` instead of discarding the batches that succeeded beside it.
* Deduplicate matched nodes by id, and count `changed_files` as distinct paths:
  a path can appear twice in one diff (a rename reported alongside an edit).
* Cap the listed symbols at 1,000 with `symbols_truncated: {listed, total}`.
  A repo-wide diff otherwise puts an unbounded array in one MCP payload — the
  CLI has `--limit`, an MCP client has nothing. Counts are never capped, so the
  risk level and the CLI's "... and N more" still see the true total.
* Extract `chunk` / `mapBatches` / `LBUG_QUERY_BATCH_SIZE` into
  `core/lbug/query-batch.ts`. Every query built from a caller-sized array has
  this ceiling; the shape now has one name and the measured batch size is
  recorded where it is defined rather than in three constants under three names.
* Move hunk grouping and the 0-based conversion into `coalesceHunksByPath`, at
  the parse boundary. `parseDiffHunks` stays faithful to git (1-based, like the
  `@@` headers it reads), consumers compare graph-native values, and the
  conversion is unit-testable instead of living in the backend.
* Document `partial` and `symbols_truncated` in the detect_changes tool
  description — the MCP client is the main consumer of the pre-commit gate and
  was getting both as undocumented raw keys.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_019d85r7TrMYjWbTUT3pXccS

* refactor(core): batch every remaining repo-sized query list (#2915)

`detect_changes` was not the only place building query text from a
caller-sized array. `core/wiki/graph-queries.ts` interpolated the whole file
list of a module into four `IN [...]` literals, growing the query with the
repo — flat breadth rather than the nested depth that crashed #2915, but the
same unbounded shape, and the one the repo's own `DELETE_FILES_CHUNK_SIZE`
precedent already chunks elsewhere.

All four now run one query per batch and merge in JS. The membership arms need
care, and each is documented where it happens:

* `getIntraModuleCallEdges` batches the caller arm only. A per-batch callee arm
  would drop a call from batch 0 to batch 2, both inside the module, so that
  predicate moves to JS against the whole set. Results are now sorted: the
  single-query form had no ORDER BY, and batch order would hand the entire
  30-edge window `formatCallEdges` keeps to the first 100 files (#2787).
* `getInterModuleCallEdges` keeps the SAME batch list in its `NOT` arm. That is
  sound — a file outside the module is outside every batch — and it preserves
  the null handling: `NOT null IN [...]` is null, so the original dropped edges
  to a node with no filePath, where a JS-only `!has(undefined)` would admit
  them. ORDER BY and LIMIT move to JS because a per-batch limit would cut rows
  before the cross-batch membership filter ran.
* `getProcessesForFiles` keeps `LIMIT` inside the batch: `stepCount DESC, id` is
  a total order, so a process in the global top-N is in its own batch's top-N.

Also adopt the shared `chunk()` at the hand-rolled slice loops in
`lbug-adapter.ts`, `embeddings/http-client.ts` and `run-analyze.ts`. The loops
whose index fed a progress callback or an error message use
`chunk(...).entries()`, which removes the `i / SIZE` and `Math.floor(i / SIZE)`
arithmetic rather than reproducing it. No batch size changed.

One trap that survived tsc and is worth naming: after renaming a loop variable
away from `chunk`, a leftover `chunk.length` silently resolved to the imported
FUNCTION's arity, reporting `chunkSize: 1` for a 200-path batch. Only
`lbug-query-importers-batch`'s exact-value assertion caught it.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_019d85r7TrMYjWbTUT3pXccS

* refactor: name the line-base conversions and share the symbol line (#2915)

The 0-based-graph vs 1-based-elsewhere rule was open-coded in five places with
the reasoning living only in comments — the same rule that, applied by hand and
skipped once, hid every last-line edit from `detect_changes`.

* Add `toOneBasedLine` beside `toZeroBasedLine` in `ingestion/utils/line-base.ts`
  so the module owns both directions, and adopt it at the four CFG/PDG join
  sites in `pdg-impact.ts` and the two in `local-backend.ts`. This is NOT
  `line-display.ts`'s `toDisplayLine`, which is documented as a response
  boundary converter with an `undefined` passthrough; the joins need
  arithmetic, and the guards that produce `Number.NaN` for an absent line are
  kept verbatim.
* `http-route-extractor.ts` probed graph spans with a bare `line - 1` and a
  20-line comment. It calls `toZeroBasedLine` now; the `?? pick(line)` fallback
  arm is untouched, so which node is picked cannot change (the clamp differs
  only for a negative line, which no emitter can produce).
* Extract `formatSymbolLine`: `detect-changes-format.ts` and `eval-server.ts`
  rendered the same `type name → filePath` line. One behavior note — the two
  were not byte-identical, and eval-server had no placeholder on `name`, so a
  definition with an empty name rendered the literal `undefined` and now
  renders `?`. Both `definitions[]` shapes set name from a graph row, so this
  is unreachable in practice, and printing `undefined` into LLM-facing output
  is the bug, not the intent.

`||` (not `??`) in the placeholders is deliberate and documented: a node label
can come back as an empty string and still needs the placeholder.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_019d85r7TrMYjWbTUT3pXccS

* perf(wiki): bind the module file list instead of splicing it into the query (#2915)

The wiki's four `IN [...]` sites interpolated every file of a module into the
query text, so the text grew with the repo — the shape that overflowed
LadybugDB's recursive evaluator copy in `detect_changes`. The previous commit
chunked them, which worked but cost real complexity: the callee arm had to leave
Cypher and be re-implemented in JS, DISTINCT had to be re-established across
batches, and ORDER BY/LIMIT had to move to JS so a per-batch window could not cut
rows the cross-batch filter still needed.

Binding the list as a parameter removes the reason for all of it. The text is
constant at any list length, and measured against a real index a bound list is
~3x faster than the equivalent literal (5,000 items: 139ms vs 459ms; 20,000:
598ms vs 1,686ms). Every predicate goes back into Cypher, including the `NOT ...
IN` arms whose null handling is load-bearing — `NOT null IN [...]` is null, so a
callee with no filePath is dropped by the engine, where a JS membership test
would have admitted it.

Verified on this repo's own index: a 2,000-path bound list returns 14,856 rows in
877ms.

Also collapses the per-process step query into one grouped `p.id IN $ids` fetch —
105ms to 13ms for 20 processes — and drops `fileListLiteral`, `callEdgeKey`,
`compareProcessHeaders` and the batching loops with it. `compareStrings` was a
byte-identical re-roll of `compareCodeUnits` (src/lib/utils.ts), including its
#2787 rationale; it now calls the shared one.

Intra-module edges are sorted where the original had no ORDER BY: `formatCallEdges`
keeps only the first 30, and an unordered cut keeps a different subset per machine.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_019d85r7TrMYjWbTUT3pXccS

* refactor(core): one home for batching, and a backstop for the shape that crashed (#2915)

`chunk` moves to `src/lib/utils.ts`, the repo's generic-utility home: it is an
array helper, and leaving it in `core/lbug/query-batch.ts` made an HTTP
embedding client import batching from the graph-DB namespace. `query-batch.ts`
keeps what is actually about queries — the measured `LBUG_QUERY_BATCH_SIZE`, the
concurrency helper, and the ceiling — and now documents the preference the wiki
change proved: bind the list as a parameter first, chunk only when you cannot.

`mapBatches` becomes `mapConcurrent`: nothing about it is batch-specific, and it
now has non-query callers. Its body is a per-item try/catch plus `Promise.all`,
so ordering comes from the primitive rather than from unwrapping a settled
union. The wave barrier stays — measured against a rolling window it is 538ms vs
532ms on a 1,000-file diff, whose per-batch times spread only 1.35x.

Adopted at the loops that were still hand-rolled: `file-hash.ts`,
`cluster-enricher.ts` (its progress callback now accumulates `batch.length`
instead of clamping an index), `filesystem-walker.ts` and `language-config.ts`
(wave scheduling with `allSettled`, which is exactly `mapConcurrent`).
Deliberately not adopted, each for a stated reason: the analyzer-identity probe
runs as a standalone `node -e` script with no module resolution; the embedding
sub-batch loop slices two parallel arrays and breaks early;
`walkRepositoryPaths` reports progress from inside each wave, which
`mapConcurrent` cannot express.

`warnIfQueryTextUnbounded` is the backstop: #2915 died in native code with no
message, and a query built by concatenating a caller-sized list is the shape
that gets there. Wired at both execution chokepoints (`pool-adapter`'s
`executeParameterized`, `lbug-adapter`'s `executePrepared`/`streamQuery`; their
`executeQuery` siblings delegate and are covered once). It never throws — a long
query the engine can actually run must not start failing on a heuristic — and it
is deliberately absent from the raw write path, where a node's `content` is
inlined and a large source file would warn legitimately.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_019d85r7TrMYjWbTUT3pXccS

* refactor(mcp): name the path-match rule, and key detect_changes by node id (#2915)

* `path-predicate.ts` names the three ways a caller's path can match a stored
  `filePath` — `exact`, `pathSuffix`, `fragment` — instead of each call site
  copying whichever idiom its neighbour used. A bare `ENDS WITH` is a plain
  string suffix, which is how a diff touching `lib/a.ts` came to report a symbol
  from `src/mylib/a.ts`; the loose `CONTAINS` sites are loose ON PURPOSE (a user
  hint of `src/mcp` should match a directory fragment), and naming the modes is
  what lets a call site choose rather than inherit.
* `detectChanges` kept four structures over one row set — an array, a dedup Set,
  an id list and an id→name Map — that had to stay in sync by hand. One
  id-keyed Map is all of them; insertion order is preserved, so every output is
  byte-identical.
* `symbols_truncated: {listed, total}` becomes `truncated: true`, the key
  `explain`/`pdg_query`/`trace` already use. The true total was always in
  `summary.changed_count`, so the nested object said nothing the existing
  vocabulary could not.
* `GraphLineRange` is now a distinct type from `DiffHunk`: they carry the same
  two fields in different bases, and mixing them IS #2377. The name means a
  1-based hunk cannot reach `hunksOverlapRange` without a conversion between.
* `coalesceHunksByPath` accumulates raw ranges and coalesces once per path
  rather than re-sorting on every occurrence.
* `chunk` adopted at this file's own five loops — the point of extracting it —
  including two locals named `chunk` that shadowed the import. That shadowing is
  not cosmetic: it is how a leftover `chunk.length` silently became the
  function's arity earlier in this branch.

One bug caught by the real-engine integration test and worth naming: Cypher
comments are `//`, not `--`. A `--` comment inside the query string made
LadybugDB reject the whole query at PREPARE, which `detect_changes` swallows
into `partial` and renders as "No changes detected." Every mocked unit test
passed. Prose stays out of query strings.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_019d85r7TrMYjWbTUT3pXccS

* refactor(test): share the git-repo bootstrap, and move the shared formatter out (#2915)

`formatSymbolLine` lived in `detect-changes-format.ts` but is rendered by
`eval-server`'s query formatter too, so a `query` formatter imported from a
`detect_changes` module. It moves to `src/cli/format-symbol.ts`; both callers
import it from there. The `||`-not-`??` fallbacks stay documented — a node label
can come back as an empty string and still needs its placeholder.

`test/helpers/temp-git-repo.ts` gives `initGitRepo(dir, identity?)` and
`commitAll(dir, message)` to the ~10 test files that hand-rolled the same
`git init -q` + two `git config` + `add -A` + `commit` sequence. It takes a
directory and never owns one, matching `temp-dir-pool.ts`'s split of lifecycle
from seeding; the identity is a parameter because the existing consumers
genuinely disagree about it, and each keeps exactly what it configured. Four
files stay hand-rolled for stated reasons — pinned author dates for a
deterministic digest, remote handling, `--allow-empty`, and the `-c key=value`
form that never persists to the repo.

Test trims: the `formatSymbolLine` fallback cases collapse into one `it.each`
table (the case pinning that BOTH consumers emit the helper's exact line stays —
no table row can express it); two `line-base` cases that were compositions of
their neighbours go; and `detect-changes-path-anchoring` runs its
`detect_changes` call once in `beforeAll` instead of three times, keeping the
three named failures.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_019d85r7TrMYjWbTUT3pXccS

* perf(mcp): filter the batched hunk query before the engine materialises (#2915)

`UNWIND $bounds AS b MATCH (n) WHERE …b…` compiles to a CROSS_PRODUCT whose
build side is a RESULT_COLLECTOR over the whole filtered node table: only the
`n`-only predicates get pushed below the accumulate, so neither the anchored
path match nor the [lo, hi] span could reduce the scan. Measured at 1M nodes:
+242 MB for one batch and +922 MB for the four concurrent ones, paid even for a
one-file diff — and at a 268 MB buffer pool the query died with `Buffer manager
exception` where the old per-file query completed, landing in `partial:true` +
`changed_count:0`, the #2915 false clean by another route.

Adding the batch-wide, `b`-free disjunction as a redundant leading conjunct
lets the planner push it below the accumulate: EXPLAIN now shows it as FILTER[2]
directly under SCAN_NODE_TABLE[0]. It is a provable superset of the correlated
predicate, so it cannot drop a row the correlated filter keeps. 10x less memory,
~20% faster, identical result sets.

Also in detect_changes:
- Sort rows on (filePath, startLine, id) before the 1000-symbol cut. The cut was
  slicing engine row order — measured 5 distinct orders across 8 runs on one
  connection, the #2787 class this branch fixes 200 lines away in the wiki.
- Chunk `symIds`, the one caller-sized list left unbatched: 500k ids measured
  4.0 GB RSS. Binding keeps the query TEXT constant, which is all the unbounded
  guard measures, while the bound VALUE stayed repo-sized.
- Prefer exact path equality and widen to the anchored suffix only for paths
  that matched nothing, so a root README.md stops reporting pkg/*/README.md.
- Report `risk_level:'unknown'` rather than 'low' when a query was swallowed.
  A degraded pre-commit gate must not read as an all-clear.
- Pass --no-ext-diff --src-prefix=a/ --dst-prefix=b/. `diff.noprefix` in a user's
  gitconfig makes git emit `+++ f.py`, which parseDiffHunks cannot match, so every
  run printed "No changes detected." and exited 0 before any query ran. A diff
  that parses to zero files now raises `partial` instead of the clean branch.
- `labels(n)`, not `labels(n)[0]`: labels() returns a scalar string here, so the
  subscript was always '' and `type` never carried a label.
- Validate IMPACT_MAX_CHUNKS. The chunk() adoption turned an entry condition into
  an exit condition, so a non-numeric value ran every chunk instead of none.
- Record why four-way concurrency is safe here, and scope the arm64 sequential
  comment to the query it was written for (#496).

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_0139ycbqnAorkJGQaZQXUNuv

* fix(cli): fail the detect_changes gate instead of exiting 0 when it degrades (#2915)

The secondary half of #2915 was that a swallowed query failure printed
"No changes detected." and exited 0, so a shell pre-commit gate passed on a
broken analysis. This branch added the PARTIAL text. It did not change the exit
status, so `gitnexus detect-changes && git commit` still proceeded.

`detectChangesCommand` passed a STRING to `output()`, and `output()` sets a
failing code only for an OBJECT carrying `error` — under a comment calling
itself "the one place that keeps scripted callers honest". A string never
matches, so this command opted itself out of the only mechanism the file
provides. It was broader than `partial`: the formatter also renders a backend
`{error}` payload as text, so hard failures exited 0 too.

Fixed narrowly in `detectChangesCommand`, following the object-first shape
`checkCommand` already uses, rather than widening `output()`'s shared contract —
every one of its other seven callers already passes an object and is unaffected.
One code for both `error` and `partial`: `&&` only distinguishes zero from
non-zero, and a softer code for `partial` would invite `|| [ $? -eq 2 ]`
exemptions that reopen exactly this hole.

`truncated` deliberately stays exit 0 — only the listing is capped, while the
counts and risk are computed over the full set, so the verdict is sound and
failing on it would fire on every large-but-healthy diff.

Also wires `truncated` through the formatter, which this branch had left as a
producer-only flag while `partial` went end to end, with the note in both
locales and no count of its own so the existing "... and N more" line stays the
sole numeric report.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_0139ycbqnAorkJGQaZQXUNuv

* fix(wiki): restore step order and symbol labels, and cut the edge list in Cypher (#2915)

Found by running the queries against a real engine, which nothing did before:
this branch's regrouped `withSteps` returned step traces OUT OF ORDER.
`ORDER BY pid, r.step` combined with `WHERE p.id IN $ids` silently drops the
second sort key — `proc_1_incrementalupdate` came back 2,7,1,3,4,5,6.
`ORDER BY step` alone is correct, and so was the pre-branch per-process query,
so this was introduced by the batching. `formatProcesses` prints
"${s.step}. ${s.name}", so every module and overview page was getting scrambled
execution traces. The mocked suite passed 112/112 before and after.

`labels(x)[0]` is always the empty string: labels() returns a scalar string and
the subscript is 1-based over its characters ([1] is "F"). `prompts.ts` renders
"${s.name} (${s.type})", so all 5,027 exported symbols reached the LLM as
"name ()".

`getIntraModuleCallEdges` shipped every edge to use 30 — measured 18,299 rows
and 851 ms with all 2,079 paths bound, against 30 rows and 94 ms with
ORDER BY + LIMIT in Cypher, which the sibling `getInterModuleCallEdges` twenty
lines below already did. The determinism fix (#2787) was right; the placement
was not. `compareCallEdges` goes with it — it was intransitive when a name was
null or empty, so `Array.sort` was input-permutation dependent, i.e. the
nondeterminism it was added to remove.

Deletes the positional row ABI this branch newly documented. The vendor
declaration is `getAll(): Promise<Record<string, LbugValue>[]>` — string keys
only — and `row[0]` probes back `undefined`; the same PR deleted ~30 identical
fallbacks from local-backend.ts. They were already stale here: `withSteps`
prepends `p.id AS pid`, so `toProcessStep` was reading the pre-branch layout.
Rows are now typed by alias, so renaming an `AS` is a compile error. `??` for
`||` so a step of 0 or an empty label keeps its own value.

Tests: a real-engine integration suite covering all seven exported queries
(PREPARE included — the trap that shipped a `--` comment on this branch), and
the four holes that let the ordering bug through — a vacuous order assertion, a
LIMIT never reached by a 2-edge fixture, a fake that returned rows pre-ordered
and ignored ORDER BY, and a hardcoded `type: 'Function'` that hid labels().

The step-ordering fixture is empirically sized: 2 processes never reproduced the
bug, ~400 step edges was intermittent, 710 (20 processes x 26-45 steps) hit
11 of 11 runs. Seeded descending and interleaved so no grouping looks sorted by
accident.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_0139ycbqnAorkJGQaZQXUNuv

* refactor: put the shared helpers where their callers are, and make their contracts true (#2915)

`mapConcurrent` moves to lib/utils.ts beside chunk(). Nothing about it is
query-specific and it already had filesystem callers, while its docstring
justified concurrency safety through the per-repo connection pool — an argument
that does not apply to fs.readFile. This is the precondition the branch's own
commit message stated ("it now has non-query callers") and then did not apply.
LBUG_QUERY_BATCH_SIZE and warnIfQueryTextUnbounded genuinely are query-specific
and stay.

`pathMatch`/`PathMatchMode` deleted: zero callers, and none of the three sites
its docstring cited were migrated, so the tree carried the abstraction and the
copies it was written to replace. `pathSuffixOf` stays and the module now
documents the anchoring rule it actually implements.

Contracts that were not true:
- QUERY_TEXT_CEILING_BYTES was compared against `cypher.length` — UTF-16 code
  units, not bytes — so non-ASCII query text was undercounted and the reported
  KB was wrong. Buffer.byteLength now, behind a `length * 3 <= ceiling` early
  return so only text over ~21 KB pays for the count.
- chunk(items, NaN) returned [[]], against a docstring promising never to return
  an empty slice, and mapConcurrent's Math.max(1, NaN) propagated it — which
  would have resolved [] for non-empty input with no error, read as "no results"
  by every call site.
- GraphLineRange claimed a 1-based hunk could not reach hunksOverlapRange
  without a conversion, but it was structurally identical to DiffHunk so tsc
  accepted one with no diagnostic, and coalesceHunks<T extends GraphLineRange>
  actively laundered the base while its accumulator was still DiffHunk[]. The
  useless generic is gone and a one-line phantom on each interface makes the
  claim real; a bare {startLine, endLine} literal still satisfies both, so no
  construction site needs a cast.

Pure deletions no longer vanish. A -U0 deletion emits `+N,0`, which
parseDiffHunks dropped, so the file survived with no hunks, no query ran, and
detect_changes reported `changed_files:1, changed_count:0, risk_level:'low'` —
"No changes detected." for a commit that deleted a function. A unified diff
spells an empty range as the line before it, so the anchor is line N alone:
a symbol containing the deleted text also contains N, while extending to N+1
would claim a symbol that merely starts after the gap — the widening
coalesceHunks guarantees it never does.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_0139ycbqnAorkJGQaZQXUNuv

* docs: say that a partial or truncated detect_changes is not a clean gate (#2915)

The gate itself now fails loudly, but the instructions every agent reads still
described a zero as a result. Fixed at the source: AGENTS.md's gitnexus block is
generated from a template in cli/ai-context.ts and injected into every user's
repo, so the sentence goes there and AGENTS.md/CLAUDE.md are regenerated through
the real code path (which also picks up a pre-existing `analyze --index-only`
drift the committed docs were behind).

That block is under a test-enforced size cap with 30 characters of headroom, so
the 144-character clause was paid for in the same currency: the header
exhortation, which the Always Do list restates as MUSTs with commands, and a
verbatim repeat of the detect-changes command in the regression-compare example.
3549 of 3552. Worth noting for whoever adds the next line — #2899 replaced an
absolute cap with a 0.65 ratio to let "a legitimate clause fit without
ceremony", but set the ratio flush against the block's then-current size, so it
is a ratchet with no ratchet.

The canonical block does not make the skills redundant: three of the four
install channels ship skills without touching AGENTS.md, --skip-agents-md does
the same in-repo, and a user-trimmed gitnexus:keep block legitimately has no
Always Do section — in those repos the skill file is the only carrier. Precedent
agrees: the risk:UNKNOWN rule is deliberately carried in both places. So one
sentence each in gitnexus-work (the commit gate), gitnexus-impact-analysis
(beside the UNKNOWN paragraph) and gitnexus-refactoring, whose post-hoc "verify
only expected files changed" is the worst of the three because a degraded result
makes it vacuously pass. gitnexus-taint-analysis is left alone: its audience is
always inside this repo, where the canonical block loads.

All copies mirrored to npm, plugin and cursor. The cursor copies are condensed
checklists rather than byte-mirrors, so they carry the equivalent note placed
where it governs every detect_changes line in the file — and nothing tests that,
since standard skills are fragment-checked rather than byte-compared.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_0139ycbqnAorkJGQaZQXUNuv

* refactor: break the seven small import cycles gitnexus check reports (#2915)

`check` reported 11 cycles. Five are paths inside a single 257-file strongly
connected component in core/ingestion (call-extractors / cfg visitors /
utils/ast-helpers), with a second 26-file component behind it — fixing those
paths would only make check print different ones, so both are left for their own
PR. This closes the seven that are genuinely separable, taking the graph from 9
strongly connected components to 2.

Six of the seven were one value import plus one `import type` edge. tsconfig
sets neither verbatimModuleSyntax nor isolatedModules, so those edges erase
entirely — the cut is a graph and readability change with no emitted-JS
difference. Each moved type went to a leaf module, with a re-export left behind
only where an importer outside the change actually needed it:

- cli/ai-context <-> cli/skill-gen: GeneratedSkillInfo -> cli/generated-skill.ts.
  One importer, no package export surface, so a clean move with no re-export.
- cli/analyze-config <-> cli/analyze (+core/run-analyze): AnalyzeOptions ->
  cli/analyze-options.ts. Re-export kept because a test imports it from
  analyze.js. run-analyze needed no edit — cutting the one type edge collapses
  the 3-file component into a DAG. Its own same-named AnalyzeOptions is a
  different interface and was deliberately not merged.
- ingestion/import-resolvers/types <-> ingestion/language-config: type-only in
  BOTH directions, so it had no runtime existence at all. ImportConfigs has no
  importers outside the pair and is the return type of loadImportConfigs, so it
  moved into language-config. Side effect worth having: the shared resolver
  types module no longer names a single language, which is an AGENTS.md rule for
  core/ingestion shared pipeline code.
- ingestion/di-extractors barrel <-> spring: DiResolver and the two match types
  -> di-extractors/types.ts, following the import-resolvers/types.ts precedent.
- scope-resolution/walkers <-> workspace-index: WorkspaceResolutionIndex ->
  workspace-index-types.ts. Re-export is load-bearing — 9 src importers, 4 test
  files, and a dynamic import() at contract/scope-resolver.ts. Moving the value
  isClassLike instead was rejected: ~15 value importers, and it is documented as
  a pair with isShapeLike.
- server/analyze-worker <-> analyze-worker-core: the WorkerMessage protocol ->
  analyze-worker-protocol.ts, a declarations-only leaf.

storage/branch-index <-> storage/repo-manager was the one genuine two-way
runtime cycle: branch-index called getStoragePaths/loadMeta, repo-manager used
branchSlug/BRANCHES_DIR. branch-index's header conceded the cycle and argued it
was ESM-safe because neither side calls across at module-evaluation time — a
guarantee resting on call ordering rather than structure. Folding
resolveBranchPlacement back the other way does not help, because
BranchSummary.stats is typed RepoMeta['stats'], so RepoMeta had to move either
way. Extracted storage/repo-meta.ts, a leaf importing only fs and path, holding
the metadata read primitives; repo-manager re-exports the public names so all
54 RepoMeta and 50 loadMeta importers are untouched. The moved block diffs
byte-identical against HEAD.

Verified beyond typecheck, because the worker entrypoint is the risky part and
nothing in the suite forks it: emitted analyze-worker.js still contains exactly
one runtime import, and forking the real worker over IPC boots it through
entry -> core -> protocol -> terminal-claim.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_0139ycbqnAorkJGQaZQXUNuv

* refactor: apply the reuse, simplification, efficiency and altitude cleanups (#2915)

The one that mattered: the degradation exit code was fixed at the wrong depth.
`output()` has never inspected `partial` — it tests `error` only — so putting
the check in `detectChangesCommand` left every other tool exiting 0 on a
degraded run. `partial` is cross-tool vocabulary: query (enrichmentDegraded ||
ftsPartial), impact (!traversalComplete, perSymbolEnrichmentCapped) and the
mode:'pdg' envelope all emit it. A truncated impact traversal returns a short
caller set and an under-ranked risk, then exits 0 — so `gitnexus impact … &&
<edit>` proceeds, in the tool AGENTS.md makes a MUST gate before every edit.
The justification also cited checkCommand as precedent, but checkCommand passes
STRINGS too — it was the second command already hand-rolling around this gap,
while output()'s docstring called itself "the one place that keeps scripted
callers honest". output() now takes an optional renderer and fails on error OR
partial; two hand-rolled sites go away and three tools are covered instead of
one. truncated stays exit 0 (only the listing is capped) and checkCommand's
cycleCount policy stays put.

Efficiency, all re-measured on the 25k-node index:
- The process lookup was chunked with LBUG_QUERY_BATCH_SIZE, calibrated for the
  opposite query shape — that constant is for a whole-node-table scan where more
  items amortise the scan, while this is an `id IN $ids` probe where round trips
  dominate. 20k ids: 617ms at 100, 261ms at 1000. New LBUG_ID_PROBE_BATCH_SIZE,
  documented against its sibling so they cannot be re-merged. This also settles
  the older "chunking this query is a regression" measurement — that was chunk=100.
- The sort comparator re-coerced fields ChangedSymbolRow already types, O(n log n)
  redundant conversions (+31-38%). Row shape probed directly: alias-keyed, no
  positional keys, numeric columns are JS numbers.
- exactlyMatchedPaths built two throwaway arrays; one loop instead (40k rows
  11.4ms -> 4.5ms).
- The integration fixture seeded 710 step edges one round trip at a time; one
  UNWIND instead. File wall time 6.91s -> 3.63s. Fixture size unchanged — its
  docstring records the threshold below which the bug stops reproducing, and the
  mutation check still fails 3/3 when ORDER BY step is reverted.

Reuse and simplification:
- CALL_EDGE_LIMIT existed in four places; its own docstring predicted the drift
  it then caused. prompts.ts owns it now — it is a zero-import leaf so the
  direction cannot cycle, and had graph-queries.ts owned it the four suites that
  vi.mock that module would have left slice(0, undefined), silently returning
  every edge in exactly the tests meant to police the cap.
- Six dead positional row fallbacks survived the rewrite in the loop this branch
  re-indented, in the same PR that deleted the identical ABI from graph-queries.ts.
- Two test files independently modelled the same labels() scalar-string quirk.
  Deleted the wiki one — the file's own new header says semantics belong in the
  real-engine test — and kept projectTypeColumn, the only instrument that can see
  the bug for the detect_changes query.
- makeRepo onto the shared git bootstrap (the eleventh copy of the sequence the
  helper was extracted to own), the duplicate diff-args unwrapper merged into
  test/helpers, hand-rolled comparators onto compareCodeUnits, real-timer sleeps
  replaced by wave-released promises with a strengthened per-wave assertion.
- Re-exports trimmed to what is actually imported, a cross-reference this branch
  invalidated by moving mapConcurrent, and a "~20% faster" claim that does not
  survive at real index sizes (1-9%; the 10x memory win does).

Also adds the drift guard the new doc text lacked: fragment coverage for the
partial/truncated paragraph in every skill copy and in the managed AGENTS.md /
CLAUDE.md block. Falsifiability checked — none of those fragments exist at the
merge base.

Not done here, deliberately: 27 live labels(x)[0] projections remain across
impact/context/query/trace and MCP resources, with four load-bearing workarounds
that have begun depending on each other and one that fabricates rather than
degrades. That is a semantic change to five agent-facing tools and wants its own
PR, scoped to delete the workarounds too.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_0139ycbqnAorkJGQaZQXUNuv

* fix(cli): restore the detect-changes subcommand in the regression example (#2915)

Caught by the gitnexus-check bot on the PR. The regression-review fallback in
the injected mandate rendered as `--scope compare --base-ref "main" --repo .`
with no command, so anyone copying it invokes the runner with an option as its
first argument.

Self-inflicted, and by exactly the mechanism flagged when it landed: the block
is under a test-enforced size cap (#856) that had 30 characters of headroom, so
adding the partial/truncated clause required paying for it, and the 38-character
"repeat" that was dropped turned out to be the subcommand rather than a repeat.

Paid for the restoration out of the clause instead — both parentheticals are
gone, since `partial` and `truncated` are already defined in the tool
description this text points at. Block is back under the cap at 3548/3552.

Notably the cap has now been raised four times (2700 -> 2900 -> 2950, then
0.55 -> 0.65) each with the argument that the new line is load-bearing, and it
has now also caused a user-facing defect. It is not functioning as a budget.
Left at 0.65 here rather than making it five: moving the threshold to fit one's
own text is how it got here. Worth restructuring separately.

The fragment guard added a commit ago caught the rewording immediately, which
is what it is for; its fragments now pin the two policy claims rather than the
prose around them, since that prose is what gets re-trimmed under the cap.

Also verified and NOT changed: the bot's other error, that detect_changes
compares 1-based hunks against 0-based graph lines. `bounds` is built from
`coalesceHunksByPath`, which applies `toZeroBasedLine` to both ends at the
grouping boundary, and both a mocked and a real-engine test pin an edit landing
on a symbol's last line. The bot read `parseDiffHunks` in isolation.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_0139ycbqnAorkJGQaZQXUNuv

* fix(core): reject a fractional chunk size, and stop the truncation note overclaiming (#2915)

All five from the gitnexus-check bot's pass on the previous push; two were
introduced by the cleanup round that preceded it.

`chunk` guarded with `Number.isFinite`, which admits a fractional size — and
that one does not fail, it DUPLICATES. `slice` truncates its indices while `i`
does not, so size 1.5 yields slice(0, 1.5) = items 0-1 then slice(1.5, 3) =
items 1-2, putting item 1 in two batches; a caller batching a query would send
it twice. A size is a count, so `Number.isInteger`. Unreachable today (every
caller passes a constant) but the guard existed precisely for the unreachable
case, and the NaN half of it was already there.

`mapConcurrent`'s per-item degradation contract had a hole: `onError` is
caller-supplied and was invoked outside a try, so a throwing reporter rejected
`settle`, rejected the whole `Promise.all` wave, and discarded the neighbouring
successes the function exists to preserve. Reporting a failure must not become
one.

The CLI truncation note asserted "the counts and risk level still cover all of
them", which is true only when `truncated` fires alone — with `partial` the
counts are summed from the batches that succeeded. It now varies: a distinct
string when both flags are set, saying the counts are a lower bound. This is the
same claim already corrected in the tool description; the CLI text still had the
old one.

The di-extractors contract docstring claimed the barrel re-exports everything
from it. That stopped being true when the re-export was trimmed to what is
actually imported, one commit earlier.

The real-engine wiki test claimed to prepare "every exported query" and omitted
`getInterModuleEdgesForOverview`, which `generateOverview` calls. Added — it
aggregates in JS over `getInterFileCallEdges` rather than issuing its own
Cypher, so the note says why it is in a prepare test.

Verified and NOT changed: the bot's other error, that detect_changes compares
1-based hunks against 0-based graph lines. `bounds` is built from
`coalesceHunksByPath`, which converts both ends at the grouping boundary
(storage/git.ts), and two tests pin an edit landing on a symbol's last line.
The remaining seven findings are changed-symbol heads-ups with no signature
change; their callers' suites are green.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_0139ycbqnAorkJGQaZQXUNuv

* fix(mcp): make the IMPACT_MAX_CHUNKS fallback actually fire (#2915)

The validation added earlier this branch used `Number.parseInt`, which takes the
numeric PREFIX: '1.5' parses to 1, satisfies `Number.isInteger`, and silently
caps enrichment after a single 100-item batch — the opposite of the fallback the
comment beside it promised. `Number` instead, so a fractional value is rejected
and falls back to 10.

The emptiness check is load-bearing rather than defensive: `Number('')` is 0 and
0 is a legitimate value here (enrich nothing), so an UNSET variable would
otherwise mean "enrich nothing" rather than "use the default".

Behaviour table, old vs new: '1.5' 1 -> 10 (the bug), and undefined/''/'  '/
'10junk'/'-2'/'all' -> 10, '0' -> 0, '3' -> 3, ' 5 ' -> 5 all unchanged. So the
only case that moves is the reported one.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_0139ycbqnAorkJGQaZQXUNuv

---------

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Claude Opus 5 (1M context) <noreply@anthropic.com>
2026-08-12 14:51:17 +01:00
Octopus
0fa547ccdc
feat: refresh MiniMax model and endpoint configuration (#2780)
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2026-08-11 18:11:47 +00:00
Gergő Magyar
22d3c2ad74
fix(cli): stop churning the committed agent guides, and nudge --index-only (#2907) (#2927)
AGENTS.md and CLAUDE.md are the agent guides teams commit, and the injected
block carried live symbol/relationship/flow counts. Those counts move with any
code change, so every reindex rewrote a tracked file and produced a spurious
diff that had to be restored by hand before committing real work.

The write is now skipped when the volatile counts are the only delta. Counts are
substituted with placeholders — not deleted — before the comparison, so
--no-stats REMOVING the parenthetical is still a material change that writes
through; only a numbers-only difference is suppressed. Both the verbose path and
the gitnexus:keep path go through the same rule, and a project rename, a template
change, or a base_ref change still rewrites as before. Live counts remain
available from `gitnexus status` and `gitnexus://repo/{name}/context`.

Two smaller churn sources go with it:

- The file was CREATED without a trailing newline while every update path writes
  `.trim() + '\n'`, so the analyze right after committing a freshly created
  AGENTS.md dirtied it purely to append that newline.
- `--no-stats` left the per-cluster `(N symbols)` counts in the skills table,
  which are exactly as volatile as the header parenthetical the flag removes.

The stale-index hook recommended plain `gitnexus analyze` — the variant that
rewrites those tracked docs — so an agent following the nudge verbatim reindexed
with the most invasive flags. `formatAnalyzeCommand` takes `indexOnly` and the
three hook call sites (Claude, plugin copy, Antigravity) pass it; the injected
"Index stale?" line and the MCP context resource's `re_index` hint name the same
`--index-only` form. Full `analyze` stays the documented way to refresh the docs
and skills.

Both resolve-analyze-cmd.cjs copies stay byte-identical.


Claude-Session: https://claude.ai/code/session_019d85r7TrMYjWbTUT3pXccS

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Claude Opus 5 (1M context) <noreply@anthropic.com>
2026-08-11 13:30:14 +01:00
DuduPhudu
fa31a7d824
fix: close the nine follow-up review findings from #2856 (routes, receiver typing, truncation honesty) (#2899)
* fix(typescript): a type parameter shadows a declared type of the same name (W2-8)

First item of wave 2, promised to the reviewer on #2856.

`export function unwrap<Result>(value: Result): Result` names the PARAMETER, not
the `interface Result` beside it — tsc resolves both annotations to the
parameter. The type-reference capture that makes a contract answerable ("what
breaks if I remove this field?") had no notion of a parameter binding, so every
annotation mentioning `Result` inside `unwrap` minted a `USES` edge into the
interface, at the same confidence as a real consumer and indistinguishable from
one. Measured on the new fixture: `unwrap` produced TWO false edges while the
genuine consumer produced one.

Blast radius is every generic whose parameter name collides with a declared
type, and the colliding names are ordinary choices for both: `Result`, `Key`,
`Value`, `Item`, `Node`, `Options`, `Config`, `Props`, `State`, `Response`.

TWO HALVES, and the first is why upstream's fix could not reach this. #2833
introduced `bindsTypeParameter` for the CALL-receiver path, where a workspace
`class T` was answering for `<T>`. Reusing it here changed nothing at first, and
the reason is its own documented contract: `@declaration.type-parameters` was
captured for class/interface declarations ONLY, so a generic FUNCTION recorded
no parameter list and the predicate correctly returned false — absence is not
evidence. The data was missing, not the logic. So:

  - TYPESCRIPT_SCOPE_QUERY now captures type parameters on `function_declaration`,
    `generator_function_declaration` and `type_alias_declaration`;
  - the graph bridge consults `bindsTypeParameter` before emitting `USES`.

Both are load-bearing — removing either one fails the fixture.

The fixture carries two controls, because the obvious wrong fix is to stop
emitting: a genuine consumer of the interface must still link, and a generic
whose parameter does NOT collide must still link its real reference. Both are
asserted, and the "genuine consumer" case is asserted FIRST so the absences
below it cannot pass vacuously.

SCHEMA_BUMP 53 -> 54: parse-time capture change. A warm cache replays defs with
no parameter list, so the guard reads nothing and the feature is inert while
looking implemented.

Capture fingerprint re-baselined with justification. NO NEW CAPTURE NAME —
diffing the capture-name sets against the wave-1 branch returns empty; the tag
existed and now fires on more declarations. capture_groups_fp 2338 -> 2371,
fixture_count 151 -> 152, scaling 1.06 < 1.5, and JavaScript's fingerprint does
not move at all, which is the check that this is the TS declaration rules rather
than something broader.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(analyze): close the four false-success paths in the graph-write-collapse guard (W2-6)

Second wave-2 item, promised on #2856. All four were reported; all four
reproduced by reading the code they name.

(a) A SAME-COMMIT RE-RUN REPORTED SUCCESS FOREVER. Every other meta-driven
    trigger — schema fingerprint, PDG mode, runner identity, CJK segmentation,
    embedding dims — has a block that forces a rebuild before the
    `alreadyUpToDate` fast path. `graphWriteCollapsed` had none; `grep -rn` found
    writes and no reads. So the one state meaning "most of your edges are gone"
    was the one state that repaired itself only if the user happened to pass
    `--force`. Now forces a full rebuild, and forcing is right rather than merely
    re-running: the persisted graph disagrees with what the pipeline produced, so
    an incremental pass over unchanged files would write nothing and re-stamp the
    same broken index as fresh.

(b) AN INCREMENTAL RE-RUN ERASED THE STAMP. `saveMeta` is a full atomic
    overwrite, and the field was spread in only when the CURRENT run had a
    verdict. `undefined` meant two different things at that site — "full run, no
    collapse" (a positive all-clear) and "incremental write, not comparable" (no
    opinion) — so the second case silently dropped `graph-write-collapsed` from
    meta.json while the edges were still missing. Now three-way: stamp on
    detection, CLEAR on a healthy full run, CARRY FORWARD when there is no
    verdict. That is the shape `branch: branchLabel ?? existingMeta?.branch` two
    lines away had all along.

(c) THE SERVER PATH NEVER CONSUMED IT. `analyze-worker-ipc.ts` projects the field
    "so a server-side caller sees the same degraded outcome the CLI does" — but
    nothing read it, so the comment described an intention and every collapsed
    run reported `complete` to the UI and to every API consumer. Now reports
    `failed` with the counts and the remedy, matching the CLI, which prints
    `Repository indexed INCOMPLETELY` and exits non-zero. A consumer that reads
    "complete" will query the index and get confident wrong answers.

(d) --pdg ROWS MASKED TOTAL STRUCTURAL LOSS. `expected` counts the in-memory
    graph plus the streamed STRUCTURAL manifest; the streamed PDG layers never
    enter `graph.relationshipCount`. But `persisted` was `stats.edges`, a count
    of EVERY `CodeRelation` row, and PDG writes into that same table. With 1,000
    structural edges expected and 4,000 PDG rows persisted, losing every
    structural edge still read `persisted = 4000`, cleared the ratio, and stayed
    silent — on exactly the large repos `--pdg` is used for.

    Worth recording that the OBVIOUS fix does not work. Padding `expected` with
    the PDG rows makes the two universes match but leaves the ratio judging a
    minority population: 4,000 of 5,000 still clears 0.5. I wrote that first, and
    the test I wrote to prove it failed. Only comparing structural against
    structural asks the question the check exists to ask, so `getLbugStats` gains
    a `structuralEdges` count excluding `PDG_EDGE_TYPES`. `TAINT_PATH` is
    deliberately NOT in that set — it is a whole-program Function→Function edge
    persisted by the normal emit, so it is structural and stays counted on both
    sides.

    `index-freshness-graph-collapse.test.ts` had pinned the masking as correct
    (`detectGraphWriteCollapse(1000, 4000)` → undefined, "PDG layers write into
    the same table, so persisted > expected is normal"). True about the table,
    and it licensed the hole. Replaced with the case that matters and a note on
    why the fix is at the caller.

The new `structuralEdges` assertion in `lbug-core-adapter` is there because the
failure mode is silent: the query sits in a try/catch that yields `undefined`,
and `undefined` makes the collapse check decline to compare — so a typo in the
Cypher would throw nothing, fail nothing, and switch the guard off. Verified
against a real LadybugDB and mutation-checked by breaking the query.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(processes): make process selection insertion-order invariant (W2-5)

Third wave-2 item. Reproduced before fixing: two equal three-step flows with
`maxProcesses: 1` select `handleAlpha`; inserting the identical nodes and CALLS
edges in reverse select `handleBeta`. Same repository, same commit, a different
persisted graph — so a filesystem that enumerates differently, or an incremental
run that reorders assembly, silently changes what the tool reports.

Four sorts ranked by score or length alone and returned 0 on a tie.
`Array.prototype.sort` is stable, so a 0 preserves INPUT order, which traces
back to `graph.iterNodes()`. Under `maxProcesses` capping that decided which
`Process` and `STEP_IN_PROCESS` nodes were persisted at all. Each now falls
through to a totally-ordered, content-derived key — node id for entry points,
the joined path for traces.

WHAT IS ACTUALLY VERIFIED, stated precisely because "four fixes" would overclaim:

  - the ENTRY-POINT sort is individually mutation-verified;
  - the two DEDUP sorts are collectively mutation-verified;
  - the TRACE-RANK tiebreak is NOT individually observable, and the source says
    so. The dedup sorts already impose a total order on the list that reaches
    it, so removing it alone fails nothing. Kept as defence in depth: it cannot
    misbehave — it only makes an already-deterministic order explicit — and it
    is what stops a change to dedup ordering from silently re-opening this.

Finding that out took two fixtures. The first (three chains, three entry points)
is separated by the entry-point sort before trace ranking is reached, so it never
exercises the trace comparator at all; the second gives ONE entry point two
equal-length branches to different terminals, which is the only shape where the
trace comparator decides. Both are kept — they gate different sites.

The invariance tests assert the INVARIANT rather than any single sort, so they
cover all four sites and any future one without needing to know where they are.
Three assertions: same selection under a cap, identical set uncapped, and
identical ORDER — the last because order is what the cap consumes, so a set-only
assertion would pass while the defect persisted.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(impact): UNKNOWN dominates a mixed candidate set, instead of reporting the known floor (W2-4)

Fourth wave-2 item. The all-UNKNOWN branch here was reasoned about carefully and
is correct — its comment even names the two ways a set can be all-UNKNOWN. The
MIXED case fell straight through it.

`RISK_ORDER` is `['LOW','MEDIUM','HIGH','CRITICAL']` and has no `UNKNOWN` entry,
so `indexOf('UNKNOWN')` is -1 and an UNKNOWN candidate can never win the reduce.
An ambiguous name with one caller-less candidate (UNKNOWN, per the round-1 fix)
beside one single-caller candidate (LOW) reported `maxRisk: 'LOW'` — a confident
floor over a set containing an interpretation nobody measured. That is the same
false-safe the all-UNKNOWN branch exists to prevent, one case over, and it
surfaced in the UI as "Max blast radius N (LOW risk)".

`maxRisk` answers "how bad could this be?", and an unresolved candidate could be
CRITICAL — so any UNKNOWN in the set makes the aggregate UNKNOWN. Narrowing it
that way would normally cost information, so the measured part travels alongside
as `knownMaxRisk`, present only when the two differ: absent on a fully-resolved
set, where it would duplicate `maxRisk`, and absent on a fully-unknown one, where
there is no measured part. A reader gets "at least LOW among what resolved, and
one interpretation could not be walked at all", which is strictly more than
either value alone. The human-readable message says the same thing.

The seed gained a mixed pair because the existing one could not reach this: both
its twins are caller-less, so it only ever exercises the all-UNKNOWN branch —
which is precisely why the gap survived a round of review. Three assertions,
both halves mutation-verified.

`eval-server.ts` needs no change: it renders `result.maxRisk ?? 'UNKNOWN'`, so it
now shows UNKNOWN where it previously showed the floor.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(routes): track ternary polarity in dispatch guards, so a selected verb cannot be inverted (W2-9)

`if ((req.method === 'GET' ? false : true) && pathname === '/api/i')` emitted
`GET /api/i` — the one method that branch guarantees the request does NOT have.
A ternary SELECTS between its arms, so a verb inside one is not reached merely
because the whole condition is truthy, but `findVerbInSubtree` descended into
both arms and returned the first verb it saw. Same inversion `!` produced before
d4dcba8c, one level up.

Handled by folding the ternary where an arm is a boolean literal, which is what
collapses the selection into a conjunction:

    c ? A : false  ==  c && A     both hold, so search both
    c ? false : B  ==  !c && B    c must NOT hold, so search it at flipped parity
    c ? true : B   ==  c || B     a disjunction guarantees neither operand
    c ? A : true   ==  !c || A    likewise

Two non-literal arms leave the verb chosen by an unknown condition, so the
ternary guarantees nothing. Refusing every ternary would also have fixed the
reported bug, but three of the four shapes measured were ALREADY correct and
would have silently lost their verb; they are pinned now.

A second defect in the same walk, found while reproducing: the `!` rule was
keyed on PRESENCE, returning null at the first negation it saw, while
`isNegatedContext` two functions above states the rule is PARITY and says so
outright — `!!x` is `x`. So `!!(req.method === 'GET')` dropped a verb the source
states plainly. The existing double-negation test covered the PATH position,
where the parity walk already ran, and so never saw it. The verb walk now tracks
parity too, and the two agree.

Verb-less, not route-less: the path comparison is untouched evidence that the
branch serves that path, so an inverted verb becomes a missing verb rather than
a missing route.

SCHEMA_BUMP 54 -> 55. Routes are emitted at parse time and replayed verbatim
from a warm cache, so without the bump an already-indexed repo keeps serving the
inverted verb and the fix looks inert. Free against origin/main (48).

Every rule mutation-checked: removing the ternary dispatch, either literal-arm
rule, the negated-ternary guard, or the parity walk each fails exactly the tests
that claim it. One assertion I wrote survived all five mutations and was removed
rather than kept.

Not a recall win on crypto-trading-bot, which contains neither shape — this is
precision insurance for dispatchers that do.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(routes): report every method a dispatch guard serves, not just the first (R3-8 part 1)

`if ((req.method === 'GET' || req.method === 'POST') && bundlesMatch)` is two
routes. The verb walk returned the FIRST verb it found, so `route_map` presented
a two-method route as GET-only and `impact` on the POST path found nothing.
Taken verbatim from the reporting repo's researchRunRoutes.js.

`governingVerb` -> `governingVerbs`, returning a list; `findVerbInSubtree` and
`verbFromTernary` likewise. A guard with several verbs emits one route per verb
via the new `pushPerVerb` — they share a path and a handler but not a method,
and `(method, url)` is the key every downstream consumer dedups and looks up on.

A disjunction yields ALL its verbs or NONE, which also fixes an over-attribution
the first-match rule had:

    req.method === 'GET' || req.method === 'POST'   ->  GET, POST
    req.method === 'GET' || isAdmin                 ->  no verb

The second is reached for ANY method when `isAdmin` holds. Reporting `GET` — as
first-match did — describes a route open to everything as single-method, which
is the direction this module treats as more expensive than saying nothing.
Negated, `!(A || B)` is `!A && !B`, so it excludes verbs rather than offering
them and yields none.

Generic descent deliberately stays FIRST-match rather than unioning across
children: an arbitrary node says nothing about how its children combine, and two
verbs found under one are far more likely unrelated than alternatives. `||` is
the one construct that genuinely means "either of these".

Pinned against regression: the pre-existing rule that distributes ONE verb
across an OR of PATHS must not start multiplying methods, and switch arms
inherit the full method set.

SCHEMA_BUMP 55 -> 56. Routes are parse-time output replayed verbatim from a warm
cache. Free against origin/main (48).

Four mutations, each failing exactly the tests that claim it: removing the
disjunction dispatch, dropping the all-operands rule, allowing a disjunction at
odd parity, and emitting only the first verb.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(routes): read `.match()` dispatch, and the capturing wildcard it needs (R3-8 part 2)

`RE.test(pathname)` and `pathname.match(RE)` are the same test with the operands
swapped. Only `.test` was read, which is why 28 of the reporting repo's 75 routes
still named the shared route table as their handler rather than the module that
serves them: those modules dispatch with `.match`.

THE CAPTURING WILDCARD, which is the part that made the rest inert.
`regexToRoutePath` accepted `[^/]+` and refused `([^/]+)` — `(` fell through to
the metacharacter bail. So the non-capturing form translated and the capturing
form produced nothing, and every existing test passed because every existing
test used the non-capturing form. The tests were written against the
implementation rather than against the corpus, and the reporting repo contains
no non-capturing path wildcard at all: a dispatcher captures the segment because
it needs the id. This alone also repairs the already-shipped `.test` rule.
A capture around anything that is NOT one segment still bails — `(.+)` spans
slashes — and the alternation is balanced, so `([^/]+` unclosed is not a match.

`.match` differs from `.test` in one way that matters: its result is USED, so it
is almost always BOUND, and the verb then lives in a later `if`:

    const runMatch = pathname.match(/^\/api\/research-runs\/([^/]+)$/)
    if (req.method === 'GET' && runMatch) { … }

Reading the verb off the CALL would report every one of those verb-less. So a
bound match records `name -> path` and the route is emitted where the binding is
TESTED, once per test site — one binding tested for GET and for PUT is two
routes. A reference counts only in a truthiness position (`&&`/`||` operand, or
a whole `if` condition), which is what separates `if (m && …)` from `m[1]`: a
read of the captured segment says nothing about dispatch and would otherwise
mint a duplicate route per use of the id. A binding never tested still emits one
verb-less route — the code did compute an anchored match against the path.

Regexes named by a same-file const resolve too (`pathname.match(POSITION_REPLAY_RE)`),
with the same ambiguity refusal the string-constant map uses: bound twice to
different patterns means dropped, because a half-right regex is a wrong route.

SCHEMA_BUMP 56 -> 57. Free against origin/main (48).

Nine mutations, each failing exactly the tests that claim it. TWO of my own
tests initially survived their mutation and were rewritten, not kept:
- the non-path-receiver case had no path token anywhere in the fixture, so
  PATH_TOKEN_HINT skipped the file and the assertion was satisfied by a file
  that was never examined;
- the negation case used `!m`, which never reaches the negation check at all —
  a `unary_expression` parent is not a truthiness position to begin with. The
  shape that exercises it is `!(req.method === 'GET' && m)`.
A declaration-site skip written alongside them proved unreachable for the same
reason and was removed rather than left to imply a hazard.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(processes): report what the detection ceilings dropped, instead of logging it at debug (W2-3)

`processProcesses` has five ceilings - the entry-point trace quota, the
per-entry trace budget, `maxTraceDepth`, `maxBranching` and `maxProcesses` -
and every one of them fired silently. The result came back looking whole and no
consumer could tell it was a sample. The code's own comment already said so:

    // A silently truncating cap reads as "this is everything", which is the
    // same class of confident-empty answer this work is about.

and then only called `logger.debug`. A log nobody has enabled is not a
disclosure.

`stats.truncation` is additive, so every existing consumer of `totalProcesses` /
`crossCommunityCount` / `avgStepCount` / `entryPointsFound` is unchanged. It
carries one boolean to branch on plus a counter per ceiling, kept SEPARATE
rather than summed because they mean different things: unexplored entry points
mean whole flows are missing, while a depth-capped trace means a flow is present
but shorter than it really is.

`processesDropped` counts against the DEDUPED population, not the raw trace
list - the gap between those two is deduplication doing its job, and counting it
as truncation would report a permanent non-zero on every healthy repo.

`truncated` is DERIVED from the counters rather than set at each site, so a
ceiling added later only has to increment its own counter to be reported.

Surfaced at `warn` and NOT gated on `isDev`: "823 flows" printed without it
reads as the complete set, which is the confident-empty failure wearing its
other face - a confident-COMPLETE one. The debug line stays for the per-entry
detail it carries.

Seven mutations, each failing exactly the tests that claim it, including BOTH
directions of the flag: hardcoding `truncated` false fails the four positive
cases, and hardcoding it true fails the nothing-was-truncated case, which is
asserted first precisely so the positives cannot pass vacuously. The
`walksCutByBudget` fixture gives every node exactly `maxBranching` callees so it
asserts its own counter and not a neighbour's.

Also fixes a defect this work exposed: 10b0c7a1 (W2-5) embedded a RAW NUL BYTE
in `trace.join(...)` instead of the backslash-u escape the rest of the repo
uses. It behaves identically at runtime, but `file` reports the source as
`data`, and grep, git diff and code search treat it as binary - several greps
against this file silently returned nothing while I was reading it. main was
clean here; two other files carry the same raw byte from before this branch and
are left alone.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(scope-resolution): resolve members through a MEMBER-CALL producer's return shape (W2-1)

    const svc = new SignalService()
    const r = svc.make()
    return r.secretFlag        // <- no edge

`return-shape-members` types `r` to the producer that made it, but a member call
binds the spelling `svc.make`, and slicing that to its last segment leaves
`make` — a METHOD, never a callable binding in scope. The producer lookup failed
and the pass declined.

The limit shipped documented as needing inter-procedural receiver typing. It does
not. Measured on a fixture, the pipeline had already done the hard part:

  - `readMake -> Method:...SignalService.make#0` already resolves as an ordinary
    CALLS edge, so the receiver is already typed; and
  - `Property:...SignalService.make.secretFlag@N:C` already exists, because R3-4
    anchors a returned literal's keys to the METHOD that returns them, not only
    to free functions.

Both halves were present and unjoined — the same shape as R3-5 itself.

ADDITIVE, not a reroute. The new branch sits inside `if (producerFile ===
undefined)`, so it can only fire where the callable lookup already declined;
every reference that resolved before resolves identically, by construction
rather than by test.

Nothing new is inferred. The receiver is typed by the SAME predicate that typed
`r`, and it must itself resolve to a class — a receiver that cannot be typed
still declines, so `make.<member>` is never matched by name across the graph.
That fabrication is what the existing guards exist to stop and they all carry
over unchanged: the owner must resolve, its file must match the candidate's, and
`ownFilePaths` keeps the polyglot class registry from walking a JS read into a
Java field.

The owner segment is TWO parts for a method (`SignalService.make`) and one for a
free function (`makeSignal`), which is exactly how R3-4 qualifies each. That is
what separates two methods of one class returning the same key name from each
other AND from a free function of that name — the fixture gives `secretFlag`
three owners so a wrong resolution is detectable rather than a coin flip that
happens to look right.

Four mutations, each failing exactly the two tests that claim it: removing the
fallback, using the method alone as the owner segment, taking the producer file
from the reading file instead of the owner class, and dropping the
receiver-type requirement. 3,408 resolver tests pass, including
`polyglot-property-isolation`, which is the one this could plausibly break.

No SCHEMA_BUMP: this is a resolution pass over ParsedFiles, not parse-time
output, so a warm cache replays the same input and produces the new edges.

Measured on crypto-trading-bot: ZERO new edges, byte-identical at 62,158. Its
170 `const x = new Y()` bindings are overwhelmingly built-ins (Map, Set,
Promise, S3Client) rather than workspace classes whose methods return object
literals — it is a module-style JS codebase. Correctness fix for class-shaped
code, not a recall win on this corpus, and it should not be presented as one.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(scope-resolution): type a bare parameter from what its callers pass (W2-2)

    function readSpike(spike) { return spike.wickRatio }

had nothing to type `spike` from, so the read fell through to the 0.5 name tier.
That is the standing limit of R3-5 and, measured, by far the largest: 11,012 of
13,672 property edges on the reporting repo (81%) rest on that name guess.

The two facts needed were already extracted, for a different consumer. For JS
and TS among others, `callable-flow-captures` synthesizes:

    formal    owner=readSpike  binding=spike  parameter-index=0
    argument  source=s  parameter-index=0  direct-callee-name=readSpike

Joining them on (callee, parameterIndex) says which cell reaches which
parameter, and the argument's own binding is typed by the same
`findReceiverTypeBinding` a directly-bound receiver already uses. So the
parameter inherits the producer and `spike.wickRatio` resolves as evidence
rather than inference.

No new capture, no parse-time change, NO SCHEMA_BUMP. And deliberately not a
change to the callable-value-flow solver that owns these sites: that pass is
guarded by a fingerprint CORRECTNESS gate plus a timing budget, so this reads
the same facts and computes its own map.

AMBIGUITY DECLINES. A parameter whose callers pass different producers resolves
to nothing. Picking one would fabricate at the 0.9 PRECISE tier, which no
`minConfidence` floor can filter out — the same reason `buildConstantMap` drops
an ambiguous constant instead of taking the first.

Keyed by the formal's (scope, name), not by a definition id. The first attempt
used a def and measured `paramDef=NONE`: a parameter is not reachable through
`findValueBindingInScope` (its predicate is `isOwnableValueLabel`, which lists
Const/Variable/Property/Static because it exists for OWNERSHIP registration, and
a parameter is owned by nothing) and it is not a `local` binding either. The
formal site already states the scope its parameter binds in, which is enough.

Formals carry their DECLARING FILE in the key, so two same-named functions in
different files cannot answer for each other — dropping it makes both go
ambiguous and both readers silently lose their edge.

COVERAGE, counted rather than assumed. The synthesis skips an argument that is
itself a call result (an explicit `continue` in `callable-flow-captures`), so
`f(makeSignal())` emits no argument site and only the bound spelling
`const s = makeSignal(); f(s)` is served. That looked fatal until measured: in
the reporting repo, bare-identifier arguments outnumber call-result arguments
2,563 to 50 — 51:1. Extending the shared, benched capture synthesis for the 2%
case is not worth its risk.

Four mutations, each failing exactly the tests that claim it: keeping the first
producer instead of declining on conflict, dropping the read-site lookup,
matching a formal at index 0 regardless of the argument's index, and dropping
the declaring file from the formal key. Two of those could not be caught by the
first fixture at all — it had a single parameter and a single consumer file — so
the fixture gained a two-parameter callee and a same-named twin in a second file
before they were meaningful. The test helper also had to start filtering by
source FILE, or two different `readSpike` symbols merged into one count.

Measured on crypto-trading-bot: 36 reads left the 0.5 name-guess tier. 26 became
precise 0.9 edges (return-shape reads 1,130 -> 1,156, which is the whole delta),
and 10 became honest absences — the receiver was typed, the producer's shape was
known, and the member is NOT on it, so the site is claimed as disproved rather
than left for the name fallback to invent an answer for.

That is ~0.3% of the 11,012, and it should be reported as such. The 81% figure
is the size of the PROBLEM, not of this fix: the shape requires a bound
argument, a producer that returns an object literal, and a parameter read as a
receiver, and that intersection is narrow. The remaining name-tier reads are
mostly receivers no workspace producer types at all.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(processes,ci): anchor trace subsumption, cover the sink wiring, stop one bench guard hiding the rest (#2894, #2896, #2895)

Three follow-ups reported against #2856 after it merged. Each was reproduced
before it was fixed.

#2894 — trace subsumption matched mid-identifier.

`deduplicateTraces` decided whether one trace is a sub-path of another with an
UNANCHORED `String.includes`, so a match could begin in the middle of a node id:

    'X->AA->B'.includes('A->B')   ->   true

and `A -> B` was discarded as redundant against a chain `A` is not a step of at
all. Reproduced directly against the function before fixing.

Padding both keys with the separator makes `includes` match whole steps only.
Reported as measured-inert and that holds — the collision needs one node id to
be a strict suffix of another at a `->` boundary, which real ids
(`Function:<path>:<name>`) do not produce. Fixed anyway because the predicate
did not mean what the surrounding code says it means, in a function whose entire
job is deciding what to delete, and nothing pinned it.

`deduplicateTraces` is exported for the test, matching how `traceFromEntryPoint`
and `buildSinkFunctionSet` are already reached. The tests use bare ids because
the shape cannot be built from realistic ones — which is exactly why nothing
caught it. Alongside the regression case, two tests pin that GENUINE subsumption
still happens, prefix and suffix, so the fix cannot degenerate into "subsume
nothing" and pass the first test trivially. Mutation-checked: reverting the
padding fails the mid-identifier test and only that one.

The encoding assumes `->` never appears IN a node id; a C++ `operator->` would
defeat the join regardless of padding. Out of scope, but the assumption is now
written down where the join happens.

#2896 — the sink wiring was only ever exercised through its fail-open catch.

`processesPhase` reads `allFetchCalls` / `allORMQueries` off the parse output
inside a try/catch that falls open to "no sinks", and every phase-level test
omitted `parse` — so all of them took the CATCH branch and the success path had
no coverage. `getPhaseOutput` is a raw `as T` cast, so a field rename would make
the phase detect zero sinks while every test still passed, because zero sinks is
what they already assert.

The new test asserts the one thing only the success path can produce: a flow
ENDING at the sink while a longer chain continues past it. Its control is the
same graph with no `parse` dep, which must NOT produce that terminal — without
the control the assertion could pass for an unrelated reason. Also asserts
`processesPhase.deps` contains `parse`, so the read and the declaration cannot
diverge, and that a parse output missing those fields still fails open rather
than losing every process.

Mutation-checked, including the exact drift scenario reported: renaming
`allFetchCalls` at the read site, dropping `parse` from `deps`, and passing no
sinks to `processProcesses` each fail exactly the test that claims them.

#2895 — a failing bench guard aborted the job and masked every later guard.

Every step in the benchmarks job was fail-fast, so the first failing `--check`
aborted it and the rest reported `skipped`, which reads identically to "nothing
to do". Audited over 13 runs on #2856: the job succeeded zero times and the last
two guards executed zero times for the life of the PR, while two reviews read
the checks summary and saw nothing wrong. Both guards did in fact pass — that
was luck, not verification.

`if: ${{ !cancelled() }}` on all ten steps after the first, so one stale
baseline reports one red step instead of hiding nine. `!cancelled()` rather than
`always()` so an explicit cancel still stops the job instead of running seven
minutes of benchmarks nobody is waiting for.

The two steps easiest to miss are covered: `Receiver-resolution drop guards`,
whose `run:` sits twenty lines below its `name:` behind a long comment, and the
final `Cross-language pipeline benchmarks` step, which is not a `--check` and so
falls outside any grep for one — and is one of the two that never ran.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(parse): capture a fetch call site even when its URL is not a literal (#2897)

The `fetch` rule required the argument to be a string or template literal:

    arguments: (arguments
      [(string (string_fragment) @route.url)
       (template_string) @route.template_url])

so `fetch(url)` with a variable matched nothing at all. Measured across this
repository's own TypeScript sources: **44 of 47 fetch calls pass a variable**, so
94% produced no site.

That is what makes R3-6 look inert. The sink set is built entirely from
`allFetchCalls` / `allORMQueries`, so a function performing an outward call
through a computed URL was never a sink, no flow could terminate there, and the
sink-first ranking rule never changed an ordering. The feature was fine; the
signal underneath it was almost always empty.

The URL alternation is now OPTIONAL, so one match covers both shapes. The R3-6
sink set needs only WHERE the program reaches outward, not where to.

Route linking is untouched, by construction rather than by hope:
`processNextjsFetchRoutes` normalizes the URL first and skips anything that
yields nothing, so a URL-less entry cannot mint a FETCHES edge. Verified on this
repo — FETCHES went 8 -> 9 across the change, i.e. the widening added sink sites
without inventing route edges, which was the one real risk here.

Tested in BOTH JavaScript and TypeScript, since the rule is duplicated in each
query block and fixing one would have left the other blind:

  - a variable argument is captured, with no URL   <- the regression case
  - a computed argument (`fetch(buildUrl(), {...})`) likewise
  - a literal URL is still captured WITH its URL   <- route linking depends on it
  - a template URL likewise
  - exactly ONE site per call — an optional alternation must not make a literal
    match twice, which would double-count the site and could mint two edges
  - `prefetch('/x')` is still not a fetch

Mutation-checked: restoring the mandatory alternation fails six of the twelve,
three in each language.

SCHEMA_BUMP 57 -> 58. Parse-time capture output is replayed verbatim from a warm
cache, so without the bump an already-indexed repo keeps its empty sink set and
the fix looks inert — which is the failure this constant exists to prevent, and
would have reproduced the very symptom being fixed.

Not addressed here, and worth stating: this widens `fetch` only. The reporter's
broader point stands — anything keyed on FETCHES / QUERIES is only as good as
the extraction underneath it, and the ORM side has not been measured. A guard
that fails when a corpus known to contain outward calls yields zero sites is the
right follow-up; this change makes such a guard meaningful rather than
tautological.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(bench): re-baseline receiver-resolution for the two fixtures this PR adds

`receiver-resolution --check` failed on:

    countArm.totalDropsAllKinds: 140 -> 148
    countArm.bySiteKind.write:    11 ->  19

Investigated before touching the baseline, because a guard that exists to catch
unexplained movement should not be silenced by an unverified story.

WHAT IT IS: the count arm runs the real pipeline over a corpus that includes
`test/fixtures/lang-resolution/`, and this PR adds two fixtures there —
`member-call-producer` (W2-1) and `parameter-producer` (W2-2). Each returns an
object literal with two keys, and a producer writing its own returned key is a
write site the receiver recorder logs. Four each, eight total.

Attributed by dumping the individual drops rather than reading the aggregate:

    member-call-producer/src/producer.js   secretFlag, wickRatio  (2 lines) = 4
    parameter-producer/src/producer.js     source, wickRatio      (2 lines) = 4

The eleven drops already in the baseline are all `javascript-object-properties`
fixtures of exactly the same shape, so the new ones are not a new KIND of drop —
they are more of one the baseline already records. This is the first case the
guard's own failure message names: "a fixture was added".

WHAT IT IS NOT: `callDrops` — THE gate number, and `call`-only by deliberate
design because reads and writes "would inflate it" — is unchanged at 102. `read`
drops unchanged at 27. The SHAPE ARM shows no drift at all: no receiver spelling
moved between RESOLVES / VISIBLE-GAP / INVISIBLE-GAP, so no resolution
regressed.

HOW IT WAS ISOLATED, since the first attempt was misleading and the record is
worth having: reverting `return-shape-members.ts` alone did NOT reproduce it and
pointed away from W2-1/W2-2. Only a commit-level bisect was trustworthy —
`origin/main` OK, W2-8 OK, W2-3 OK, then W2-1 +4 and W2-2 +4, which matches the
fixture count exactly. A file-level revert leaves the fixtures in the tree, and
the fixtures are the cause.

The update is two numbers. Nothing else in the baseline moves.

Worth noting where this failure became visible at all: under the fail-fast
benchmarks job it would have aborted the run and shown the five guards after it
as `skipped`. It is legible here because #2895 — fixed in this same PR — now
lets every later guard run.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(analyze): stop `--pdg` runs reporting a healthy index as INCOMPLETE

Every `gitnexus analyze --pdg` reported a graph-write collapse and exited 1 on an
index where every row had persisted. Reported by a user hitting it on a real
repo; introduced by this PR's own W2-6(d).

    Repository indexed INCOMPLETELY
    the pipeline produced 200,501 relationships but only 64,764 are readable

The index was complete: 200,190 rows present, 109,905 PDG and the rest
structural, all queryable.

WHAT WENT WRONG. W2-6(d) made the persisted side count STRUCTURAL rows only —
correct, and the reason is in its own comment: PDG writes into the same table, so
counting everything let PDG surplus mask real structural loss. But the expected
side kept using `graphEmitManifest.totalRows`, and that is a BUFFER-POOL SIZE
HINT which counts every streamed row. PDG streams through that same sink, so the
check compared a structural-plus-PDG expectation against a structural
measurement. On any repo with a PDG layer that is a guaranteed false collapse.

It compounds rather than merely misreporting: the run stamps
`graph-write-collapsed`, and W2-6(a)'s rebuild trigger — added alongside it —
forces a full re-analyze next run, which collapses again. A permanent rebuild
loop, on an index that was never damaged, at ~100s a cycle.

MEASURED RATHER THAN ASSUMED, because the first attempt was wrong. I first
subtracted PDG edges RESIDENT in `graph.relationshipCount`, rebuilt, re-ran the
failing command and got byte-identical numbers. Instrumenting the three terms
showed why:

    relationshipCount=20,825  graphManifestTotalRows=179,676
    pdgEmitManifest=absent    residentPdgInGraph=0

PDG is not resident in the graph AND has no separate manifest — it streams
through the ordinary `GraphEmitSink`. The reverted attempt is not in this diff.

THE FIX. A pair key cannot separate them: it is `From|To` NODE LABELS, and a CFG
edge shares `Function|Function` with CALLS. Only the write path sees
`relationship.type`, so the sink now counts a `structuralRows` subtotal there and
publishes it on the manifest. `totalRows` is unchanged — it still sizes the
buffer pool, which is what it was for.

WHY THIS SHIPPED UNCAUGHT, and what changed about that. The wiring test kept a
LOCAL MIRROR of the expected-count expression "because the production expression
is inline in a 3000-line function". A mirror cannot catch a term the original got
wrong. That expression is now an exported
`computeExpectedStructuralRelationships` which production calls and the test
imports.

It also takes the MANIFEST rather than a pre-selected number, deliberately: the
defect was choosing the wrong FIELD, and a numeric parameter leaves that choice
at a call site no unit test can reach. Verified — with the helper taking a
number, reverting to `totalRows` failed nothing; taking the manifest, the same
revert fails four tests.

Verified end to end on the reported command: `analyze --force --embeddings 0
--pdg` now exits 0 with "indexed successfully", 86,963 nodes / 200,217 edges, and
the run clears the stale collapse stamp.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(routes): scope match bindings, and intersect ternary conjunctions

Two ways the dispatch-guard walk minted a route that does not exist — the one
thing this module's header says is worse than missing one.

MATCH BINDINGS WERE KEYED BY BARE NAME, FILE-WIDE. `collectFromMatchBindings`
walked from `tree.rootNode` and resolved `matchBindings.get(node.text)` at every
identifier in a truthiness position, so a same-named binding in ANOTHER function
answered for it. The poison check only fired on a second REGEX match with a
different URL; a non-match binding never entered `collectFromRegexDispatch`, so
nothing refused it. Reproduced:

    function handleReplay(req, res) {
      const m = pathname.match(/^\/api\/live\/positions\/([^/]+)\/replay$/);
      if (req.method === 'GET' && m) { … }
    }
    function handleSettings(req, res) {
      const m = req.headers['x-mode'];        // unrelated value, same name
      if (req.method === 'DELETE' && m) { … }
    }

    GET    /api/live/positions/{param1}/replay  handler=handleReplay    correct
    DELETE /api/live/positions/{param1}/replay  handler=handleSettings  FABRICATED

Wrong in method, handler and line. `m`, `match`, `result` are the ordinary names
here. Two ways the truth was then lost: the fabricated route is VERBED, so
`reconcileDispatchGuardRoutes` kept it and dropped the true verb-less one — the
#2856 `/api/report` shape, through the channel this series added — and `tested`
was name-keyed too, so the tail loop suppressed the real binding's own honest
verb-less emit before reconciliation ever ran.

`matchBindings` and `tested` are now keyed on (enclosing function, name).
`enclosingFunction` is extracted from the walk `enclosingHandlerName` already
did, so there is one function-boundary mechanism, not two. A second declarator
for a key refuses it, and an assignment refuses the name in its own scope and
every enclosing one. `buildRegexConstantMap` refuses a name rebound to anything
that is not a regex literal, closing `let RE = /…/; RE = buildDynamic(req)` and
the `new RegExp(prefix + '/x')` twin.

A use resolves only within its own function. Resolving outward would need a
complete declaration model — params, imports, catch bindings — and a miss there
fabricates exactly the route this fixes. Declining costs the verb, not the path.

THE TERNARY TOOK FIRST-MATCH WHERE THE ALGEBRA IS INTERSECTION. The docblock
proves `c ? A : false ≡ c && A` and says "both hold, so search both", but
`firstNonEmpty` returned one operand's set unintersected:

    (req.method === 'GET' || req.method === 'POST')
      ? (req.method === 'POST' || req.method === 'PUT')
      : false                                    emitted GET and POST
                                                 only POST is reachable
    req.method === 'GET' ? req.method === 'POST' : false
                                                 emitted GET, unsatisfiable

`intersectVerbs` replaces it for both conjunction shapes. An empty side still
yields to the other — "names no method" is not "admits none", which is what the
`isAdmin && POST` fallthrough is for — but two non-empty sides intersect, and an
empty intersection is an unsatisfiable guard that yields no verb.

Both changes strictly REMOVE routes, so SCHEMA_BUMP 58 -> 59: routes are
parse-time output replayed verbatim from a warm cache, and without the bump an
indexed repo keeps serving the fabricated verbed route while the fix looks
implemented.

10 tests added, 9 of which fail without the change. All 86 existing assertions
pass unchanged; none was weakened.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01LZu3G5USo5Rs9myaaxVWjK

* fix(scope-resolution): bind a type parameter only inside the scope it opened

W2-8 captured `@declaration.type-parameters` on EVERY `type_alias_declaration`,
but an alias becomes a SCOPE only when its value is an `object_type`
(`typescript/query.ts:149`). For a union, array, conditional, mapped, tuple or
function alias there is no scope, so the def — now carrying `typeParameters` —
attached to the innermost enclosing scope, which is the MODULE. And
`typeParameterNamesInScope` folds each scope's set from its PARENT'S, so the
name landed in every scope in the file. The `USES` guard then deleted every edge
whose target had that simple name:

    export interface Result { ok: boolean }
    export type Maybe<Result> = Result | null      // one ordinary line
    export function readResult(r: Result) { … }    // its USES edge is DELETED

Silent data loss, in the edge class whose whole purpose is answering "what
breaks if I remove this field?". Measured: adding two scope-less generic aliases
emptied the fixture of USES edges entirely.

The existing fixture could not see it — it wrote `type Box<Result> = { held: Result }`,
the ONE alias form that opens a scope.

`typeParameterNamesInScope` now reads a def's `typeParameters` only when that
declaration OPENED the scope owning it: `scope.kind !== 'Module'` and the def-id
position equals the scope range start, via the canonical `definitionIdPosition`
rather than slicing the id. That is the same alignment test `pickCallerCallableDef`
uses to tell a closure from a nested function, and it is language-neutral — it
also covers `function f() { type W<Result> = Result[] }`, which a module-scope-only
stopgap would miss.

Every language populating the capture was audited (ts, java, csharp, kotlin,
rust, cpp): all anchor it on a declaration that IS a scope node, including C++
where the capture rides `template_declaration` but the anchor is the inner
`class_specifier`. Go uses a separate sidecar. The TypeScript non-object alias
was the only mismatch in the codebase. `query.ts` is untouched.

THE GUARD ALSO SAT AT THE WRONG LAYER, which forced three defects at once. It
keyed on `edgeType === 'USES'` — and `mapReferenceKindToEdgeType` maps THREE
kinds there, `type-reference`, `value-ref` (#2437) and `macro` (#1934) — and,
because `Reference` carries no spelled name, substituted the resolved def's name
via `simpleNameOfDefId`. So `import { Result as ApiResult }` inside
`function unwrap<Result>()` deleted a REAL edge, while a namespace-qualified
target (`Host.Result`) kept a FALSE one, and a positional `@row:col` suffix broke
the last-colon parse outright.

Moved to `lookupForSite`'s `case 'type-reference'` in `resolve-references.ts`,
which has the spelled `site.name` and the reference kind in hand. One line closes
all three, deletes `simpleNameOfDefId` — a byte-identical duplicate of
`simpleNameOfGraphId` — and removes the only `graph-bridge/` -> `scope/` import
in that directory.

Honest scope: all three sub-defects are real in the code but none is observable
end-to-end today (`value-ref` never reaches this path; TypeScript emits no
cross-file USES for a type annotation at all — a separate pre-existing gap). Those
arms are labelled forward guards in the test rather than claimed as repros.

Fixture grows 1 file -> 4; 3 of 9 assertions fail without the change. The
scope-capture TypeScript fingerprint moves for FIXTURE-CORPUS GROWTH ONLY, with
per-file accounting that sums to the delta and JavaScript unchanged as the
control — see the `_rebaselined_` key.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01LZu3G5USo5Rs9myaaxVWjK

* fix(scope-resolution): refuse an ambiguous formal, stop the walk at the nearest binding

Two ways W2-2 typed a parameter from the wrong caller, both at the PRECISE 0.9
tier — above every `minConfidence` floor, so nothing downstream can filter them.

`formals` WAS LAST-WRITE-WINS. The key is (filePath, ownerName, parameterIndex),
`ownerName` is a bare identifier, and `emitFormalFacts` emits one site per
parameter of EVERY function collected, nested functions and class methods
included. A plain `.set` let two same-named callables in one file collide — a
free `parse` and a nested `parse`, a free `apply` and `Runner.apply` — so the
last one visited won, fabricating an edge on the loser and leaving the genuine
consumer untyped. The file's own comment covers only the cross-FILE axis.

The correct shape was thirty lines below, in the `producers` map, which does
`producers.delete(cell); conflicted.add(cell)`. `formals` now refuses the same
way: a key claimed by two DIFFERENT parameters is deleted and recorded, so a
third same-named formal cannot re-claim it. Re-stating the same cell is not a
disagreement, so a benign duplicate capture cannot poison a real key.

THE SCOPE WALK CLIMBED PAST A NEARER BINDING. The docblock claimed it stops at
the first scope carrying the name, but it consulted only `parameterProducers` —
a shadowing `const`, a catch binding or an arrow parameter is not in that map, so
the walk went straight past it to the enclosing formal:

    function readSpike(spike) { … items.map((spike) => spike.wickRatio) … }

typed the ARRAY ELEMENT from the outer parameter. `parameterProducerFor` now
stops at the first scope that binds the name AT ALL — reading the scope's own
tables, the same channels and the same reasoning as the sibling
`isNamespaceNameShadowed` — and then stops at a Function boundary. That boundary
is what covers the anonymous arrow: `collectFunctions` drops a callable it cannot
name, so an anonymous arrow emits no formal site and its scope looks empty while
in fact rebinding the name. The cost — a closure genuinely reading an enclosing
parameter now declines — is documented as the deliberate trade.

No cycle guard, deliberately and with the reason stated: both constructions of
`indexes.scopeTree` validate through `buildScopeTree`, which enforces strict
parent-contains-child ranges, so a cycle needs a scope strictly containing
itself. A per-site Set on every read/write site in the repo would defend against
a state the builder rejects.

5 fixtures, 5 assertions; 4 fail without the change and the control passes both
ways. Still uncovered and not faked: a `for (const x of …)` binder shadow — the
binder lives in the loop header, so JS emits no scope to stop at and no Function
boundary intervenes.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01LZu3G5USo5Rs9myaaxVWjK

* fix(analyze): measure one population in every config, split the stamp on the verdict

`1b41c9df6` fixed the collapse check for the STREAMED configuration by giving
the sink a `structuralRows` subtotal. It does not cover the other one.

`resolveStreamGraphEmit` and `resolveStreamPdgEmit` both open with a
`force === true` gate, so a run without `--force` streams nothing: there is no
manifest, `structuralRows ?? 0` contributes 0, and
`scope-resolution/pipeline/run.ts:1222` (`input.pdgEmitSink ?? graph`) writes PDG
into the ordinary in-memory graph, where `relationshipCount` counts it. And
`isIncremental` requires an existing meta, so a FIRST run is a full write and the
check runs. A first-time `gitnexus analyze --pdg` on a fresh repo therefore
compared structural+PDG against structural and exited non-zero with
"Repository indexed INCOMPLETELY" on a healthy index.

MEASURED, not assumed — `runScopeResolution({ pdg: true })` with no sink:

    pdgEmitSink        = absent (non-force shape)
    relationshipCount  = 1
    residentPdgInGraph = 1
    byType             = [["CFG",1]]

The prior `residentPdgInGraph=0` was taken on a `--force` run, where
`input.graph` IS the sink; it never spoke to this case. `graph-collapse-wiring.test.ts`
had pinned the gap, asserting a PDG-inclusive in-memory count was a valid
structural expectation.

`countStructuralRelationships(graph)` filters `PDG_EDGE_TYPES` over
`forEachRelationshipFields` — the same predicate the sink uses for
`structuralRows` and the adapter for `structuralEdges` — so all three terms
measure one population in every configuration. Declining whenever
`pdg && !streaming` was rejected: that is the DEFAULT PDG shape, so the guard
would be off for every non-force run including the only full write most users
ever do. An unscannable graph (mocked pipelines) yields NaN, the same fact the
old `undefined + rows` produced and one `detectGraphWriteCollapse` already
documents as expected input.

THE THREE-WAY STAMP WAS A TWO-WAY. The comment enumerated collapse -> stamp,
healthy -> clear, no verdict -> carry forward, but the code split on the WRITE
MODE. `graphWriteCollapsed` is undefined for two different reasons, and one of
them is "the structural query threw" — so on a full run where the count could
not be READ, the code took "healthy, clear it" and erased a stamp recording real
edge loss. Run 3 then printed "Already up to date" forever: the exact failure the
comment says it fixed, reachable through the new code's own `catch {}`.

`detectGraphWriteCollapse` now returns `'collapsed' | 'healthy' | 'unmeasurable'`
with a reason, and `selectPersistedCollapseStamp` is a pure exported function
production calls. Two boundaries worth naming: `expected === 0` is unmeasurable
(its own docstring calls it "could not report a total"), but the small-repo
exemption and a cleared ratio are HEALTHY — both counts were taken. Making the
exemption a non-verdict would leave a stamp unclearable on any repo that shrank
below 100 edges, relocating the wedge rather than fixing it.

`getLbugStats` now reports `structuralEdgesError` and warns, and `run-analyze`
falls back to `stats.edges` only when the run had no PDG layer, where the two are
equal by construction. With `--pdg` on there is no substitute, so the absence
becomes an explicit unmeasurable verdict — which preserves the stamp.

13 tests added; 8 fail without the change. The integration suite now seeds a CFG
row and asserts `edges` moves while `structuralEdges` does not — the exclusion
filter was previously unexercised, its own comment conceding "structural == total
here".

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01LZu3G5USo5Rs9myaaxVWjK

* fix(server): check the collapse before publishing the index

W2-6 marked a collapsed run's job `failed`, but the check ran INSIDE
`.then(() => backend.init())` — after the publish. `LocalBackend.init()` is the
publish step: it refreshes the registry and atomically swaps the in-memory repo
map every MCP tool and HTTP route resolves through, and its `validate` pass
prunes only entries whose metadata is provably gone, so it can publish but never
quarantine. The known-incomplete database was therefore live and queryable before
the job was ever marked failed — the job status was a label on a published index,
not a gate. The pre-existing comment two lines above says so outright: "the repo
is actually queryable when the client receives the SSE complete event."

`backend-client.ts` routes `failed` to `onError` and never calls `onComplete`, so
the UI showed an error toast while every query against that repo answered from
the incomplete graph — precisely the confident-wrong-answers failure this guard
exists to prevent.

The collapse branch now returns before publishing; the healthy path publishes via
a nested `backend.init()` so the trailing `.catch` still converts init failures
into the same message. `closeDbHandle()` runs on both paths — it is eviction, not
publication, and the worker rewrote the DB files regardless of outcome, so
skipping it would leave a stale pre-rewrite handle.

Honest limit, stated in the error string rather than overclaimed: this keeps a
FIRST-TIME analyze unpublished, which is the UI's main flow. On re-analysis of an
already-published repo the existing map entry survives and points at the same
storagePath. A real quarantine needs an un-register hook on `LocalBackend`, which
does not exist today — follow-up.

`'partial'` was considered and rejected on evidence: it is not a status. It is an
embedding-specific detail object in the `updateJob` allowlist; the status union
excludes it. Adding it would make `isTerminalJobStatus` false, so `sse-progress`
never writes a terminal frame and never calls `res.end()` — the stream hangs
open — while `backend-client` falls through to `onMessage` and `api.ts` spins the
full hold-queue timeout. `failed` at least terminates.

The failure branch also now sets `repoName`, which only the success path did.

First tests this file has ever had: 4, of which 2 fail without the change. They
assert the ORDERING, not just the final status, and build the worker message by
calling the production `projectAnalyzeResultForIpc` so a field rename breaks the
test instead of silently disabling the branch.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01LZu3G5USo5Rs9myaaxVWjK

* fix(processes): count the entry-point cap, and make the disclosure proportionate

W2-3 added a truncation disclosure and then missed the largest ceiling it was
written to report. `findEntryPoints` ends `.slice(0, 200)` and
`entryPointsUnexplored` counted against the POST-slice list, so candidates
201..N were invisible — while the derivation docblock claimed "a new ceiling
added later cannot be forgotten here". An existing one was. On this repo's own
corpus the new counter reads 780 of 980 candidates never ranked in.

`entryPointCandidatesDropped` reports the pre-slice count, folded into
`truncated`, with `ENTRY_POINT_CANDIDATE_LIMIT` extracted and `findEntryPoints`
taking the same optional out-parameter `traceFromEntryPoint` already uses. Its
return contract is unchanged.

THE WARN FIRED ON EVERY RUN. At the shipped defaults — only `maxProcesses` is
overridden — `calleesDropped` fires for any function with 5+ callees and
`tracesDepthCapped` for any chain deeper than 10, so an ungated `logger.warn`
was constant background noise, and a warning that always fires is one nobody
reads. The split is the module's own, from the `ProcessTruncationStats` docblock:
"unexplored entry points mean whole flows are missing, while a depth-capped trace
means a flow is present but shorter than it really is."

So `warn` iff whole flows are absent — candidates dropped, entry points never
traced, or flows dropped at `maxProcesses` — and `debug` for a run truncated only
in depth or breadth. `stats.truncation` still carries all six counters; the
machine-readable channel is unchanged, only the log level moves.
`entryPointCandidatesDropped` stays in the loud set deliberately: it is the only
ceiling that GROWS with repo size, while the other two can only fire while
`maxProcesses` is small enough to bind, so gating on those alone would go silent
on exactly the large repos where 200-of-several-thousand is the thinnest sample.
The message leads with the ratio so the line carries a fact, not an alarm.

THREE COMPARATORS ALLOCATED PER COMPARISON, in the function whose own comment
explains the hoist that removed this shape (`deep_chain` 1233 -> 102 ms).
Measured here: +99 ms once per analyze at 80k functions — small, because `n` is
capped at 200 entry points x a 12-trace budget = 2,400 traces regardless of repo
size. Worth fixing anyway: 23,851 comparisons cost 70,524 joins.

One shared `sortByDepthThenPath` (Schwartzian, key built once per trace) now
serves all three sites, and `rankedByInterest` additionally hoists the `isSink`
test that ran twice per comparison. It also settles a separator inconsistency:
`deduplicateByEndpoints` joined on a SPACE while `traceOrderKey` used NUL, and
node ids embed file paths, so two different traces could produce the same key and
the tiebreak fell back to the insertion order it exists to remove — the same
hazard this series' own `->`-padding fix addresses. Order identity is pinned by a
seeded 200-trace corpus asserting the new sort equals the old one exactly.

11 tests added, 9 failing without the change, including two end-to-end
insertion-order arms. The W2-5 determinism block is unregressed.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01LZu3G5USo5Rs9myaaxVWjK

* fix(docs): restore the agent guidance, and put it in the generator that deleted it

Commit `9e602aef0` — whose message is entirely about the fetch capture — also
regenerated the machine-managed `<!-- gitnexus:start -->` block from a local
non-`--pdg` index, deleting from both AGENTS.md and CLAUDE.md:

  - the whole `MUST treat risk: UNKNOWN as unresolved, not as low` bullet
  - the `pdg_query({mode:"controls"/"flows"})` bullet
  - the `mode: "pdg"` text on the impact bullet
  - `…never read UNKNOWN as an all-clear…` from Never Do

and regressing the stats 248612/565510/918 -> 42853/135955/758. All four document
SHIPPED features: `pdg_query` at `mcp/tools.ts:675`, dispatched at
`local-backend.ts:2233`; `mode: "pdg"` at `tools.ts:448`; `riskNote` at eight
sites.

It matters more than a docs nit because the SAME series makes `UNKNOWN` dominate
a mixed candidate set (`local-backend.ts:6058`) — correct, and it makes UNKNOWN
far more common. The surviving rule only warns on HIGH/CRITICAL, so a set
measuring CRITICAL now reports UNKNOWN and that rule no longer fires, while the
rule that covered the gap was deleted in the same commit range, from all three
files agents actually read.

ROOT CAUSE, which is why restoring the files alone would not have held.
`cli/ai-context.ts` is the template. The `pdg_query` and `mode: "pdg"` text IS in
it, correctly `hasPdg`-gated — a non-PDG analyze SHOULD drop those. The
`risk: UNKNOWN` rules were never in the template at all: they had been hand-added
INSIDE the machine-managed region, so every `gitnexus analyze` on any repo
silently deleted them. This was the second occurrence; #2856's `8f8261021` was
the first. Both lines are now generated unconditionally — they describe impact's
risk semantics, which are not PDG-dependent — so regeneration restores them
instead of removing them.

AGENTS.md and CLAUDE.md are byte-identical to origin/main again, and the fixed
template reproduces that block exactly for `hasPdg: true` plus the real stats.
`.claude/skills/gitnexus-guide/SKILL.md` regains the "Inline staleness signal"
section for a live feature (`local-backend.ts:921`, `:1017-1024`, `:1995`); the
npm mirror's lack of it is pre-existing drift and is left alone, so the new sync
guard is scoped to the canonical and plugin copies.

Guards added, both demonstrated failing against the unrestored files: the managed
block must contain the UNKNOWN policy and its Always-Do/Never-Do bullet counts
must not fall below a floor, and `generateGitNexusContent` must render both lines
for `hasPdg` true AND false while keeping `pdg_query` gated. The existing
fragment lists could never have caught this — they assert presence, and this was
a deletion.

One deliberate loosening, called out rather than buried: the restored text pushes
`ai-context.test.ts`'s block-size ratio past 0.55, so it moves to 0.65. That test
argues against exactly this nudge-the-number pattern. The defence is that the
wording is origin/main's own and the 0.55 budget was calibrated against a block
already missing it; trimming shipped guidance to fit a budget would be the wrong
direction.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01LZu3G5USo5Rs9myaaxVWjK

---------

Co-authored-by: Claude Opus 5 (1M context) <noreply@anthropic.com>
Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
2026-08-09 11:44:52 +01:00
DuduPhudu
223ac7010d
feat: close reported graph blind spots in reference resolution, analyze and storage (#2856)
* fix(mcp): report UNKNOWN risk when an upstream impact walk finds no callers

`risk: LOW` asserts "safe to change" — a claim ABOUT callers. An upstream
walk that resolved none has nothing to base it on: the symbol may be
genuinely unused, or reached only through a reference class the index does
not record (a property access on a plain object, a bare-identifier read of a
module-scope const). Seeding LOW from an empty result is the false-safe
signal `anyKnownRisk` already refuses to emit on the ambiguous-candidate
path, and that #2687 removed by making an undetermined impactedCount `null`
rather than `0`.

Zero-caller upstream results now report risk UNKNOWN with a riskNote saying
absence of edges is not evidence of disuse. Downstream is untouched: an
empty downstream walk reports resolved callees, not safety.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(javascript): emit ACCESSES for bare-identifier reads of module-scope consts

A constant read only as a bare identifier — `Math.max(LIMIT, n)`, a default
parameter value, `return LIMIT` — minted no reference site at all, because
JS captured only `@reference.read.member`, which requires a receiver a bare
identifier does not have. So "who uses this constant?", the question behind
every dead-code trim and constants refactor, answered with a confident zero
in both directions.

The rest of the machinery was already in place: `FIELD_KINDS` accepts
`Const`, the scope query already declares it via `@declaration.const`, and
`read` maps to ACCESSES for any resolved target. This adds the missing
capture in VALUE POSITIONS ONLY (call arguments, default-parameter values,
return statements) — a blanket `(identifier)` rule would mint a site for
every token in the file, which is unaffordable at repo scale and would keep
alive the block-local symbols `pruneLocalSymbols` exists to drop.

Cross-file readers are NOT yet covered: the site exists and a call through
the same import statement resolves, but a value-kind def does not link
across the import edge. Recorded as a todo with the investigation.

PARSE_CACHE_VERSION bumped 44 -> 45: this is parse-time capture emission, so
a warm cache replays the pre-change capture set and the new edges never
appear — observed directly, a full `analyze --force` produced a
byte-identical graph until the cache was cleared by hand.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(javascript): pin A1/A5 plain-object property acceptance criteria

Fixture plus todo specs for the four shapes plain-object property access has
to answer: object-literal keys indexed as Property nodes, a read through the
holding variable, a property WRITE, and a read through an untyped param.

Records the investigation so the work is resumable: the parse-query pattern
scoped to literals bound to a variable matches correctly (verified against
the raw JAVASCRIPT_QUERIES), but no Property node reaches the graph and
local-symbol-pruner is not the cause — it drops only Const/Variable/Static.
The remaining gate is in the parse worker's node-creation path.

No production code — specs only, so the suite stays green.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(javascript): index object-literal keys of a named object as Property nodes

Idiomatic JS models configuration as an object literal, not a class, but
Property definition nodes existed only for DECLARED CLASS FIELDS. A config
field therefore had no symbol at all: `context({name: 'exitMinAtrMult'})`
answered "not found" for a field read and written throughout a live code
path, and ACCESSES had no target to point at.

Both halves are added for keys of a literal BOUND TO A VARIABLE — the parse
query mints the graph node, the scope query mints the def the resolver can
aim at. Unbound literals are deliberately excluded: an inline call argument
or a JSX prop bag is call-site data, not a named surface other code
references, so a node per key there would add volume without adding an
answerable question.

This lands the definition-node half only. The ACCESSES edges still require
receiver resolution — typing the const that holds the literal to the
literal's scope for the precise case, and name-based matching at reduced
confidence for the untyped-param (option bag) case. Both are recorded as
todos with the mechanism each needs.

Also records a trap that cost a wrong conclusion: under vitest the parse
worker runs the BUILT dist code (parse-impl resolves parse-worker.js, absent
under src/, and falls back to dist), so parse-query changes are invisible to
tests until `npm run build`.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(cache): move the SCHEMA_BUMP pin to 45

The pin is the guard that makes two branches claiming one cache-schema
number fail loudly instead of silently serving each other's entries, so a
bump is only half-done until the pin moves with it. The bump itself landed
with the JavaScript bare-identifier captures; this is the other half.

Caught by the guard working exactly as designed — the suite failed with
"expected 45 to be 44" rather than letting a mismatched pair through.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(scope-resolution): resolve plain-object property access by unique name

Idiomatic JS reads configuration off an object whose receiver cannot be
typed — an options bag passed as a parameter, a destructured handle, an
imported literal. No precise pass resolves those, so a field read and
written across a live code path produced no ACCESSES edge at all and "who
reads this setting?" answered a confident zero.

A last-resort pass runs after every precise pass and sees only what they
left behind. For each still-unresolved read/write site it asks whether
exactly ONE Property in the workspace carries that name. If so the read
almost certainly means it. If two or more do, nothing is emitted and the
site is COUNTED as ambiguous — a guess between them would be a coin flip,
and a wrong edge in the pre-edit safety gate is worse than a missing one.

Uniqueness is the right gate because it recovers exactly the names worth
recovering: distinctive domain fields (exitMinAtrMult, bookNotionalUsdt)
are unique in a repo and resolve, while generic keys (id, name, data) are
not and are skipped — which is where name matching would over-connect.

Bounded four ways:
- Confidence 0.5, the global tier, with the inference named in the reason,
  so a consumer can filter inferences without losing scope-resolved edges.
- Never second-guesses a precise result: sites already resolved are
  excluded, because first-write-wins stops a duplicate but NOT a second
  edge to a different target.
- Honors `fieldFallbackOnMethodLookup`. A statically-typed language opts
  out of name matching precisely because it over-connects; inferring an
  ACCESSES edge by name is the same claim and must obey the same opt-out.
- Requires an explicit receiver — a bare identifier is not a property
  access, and matching one by name would link a local to an unrelated key.

Indexes graph nodes rather than scope defs because an object-literal key
mints a Property NODE but no scope-resolution DEF: `localDefs` and
`scope.bindings` are both empty for exactly the population this serves.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(analyze): record a collapsed graph write instead of reporting fresh

The dangerous half of a broken refresh: metadata IS written, so the index
reads as fresh, hooks re-arm, and every tool answers from a graph missing
most of its edges — indistinguishable from a codebase that genuinely has no
such relationships. Reported in the field as edges collapsing 23009 -> 2170
and as a CodeRelation table that never materialized.

`analyze` now compares the relationship count the pipeline PRODUCED against
what the DB hands back after the write. Both numbers are already in scope at
the same point, so the shortfall is provable rather than inferred — no
comparison against the previous index, which cannot distinguish a failed
write from a repo that legitimately shrank. A missing relation table needs
no special case: it reads back as a persisted count of zero.

On a collapse the run records `graphWriteCollapsed` in metadata, which
`getIndexIncompleteReasons` turns into `graph-write-collapsed` so status and
the MCP resources report the index INCOMPLETE rather than fresh.

A ratio, not equality: some relationship types do not round-trip one-for-one
and `--pdg` writes MORE rows into the same table, so demanding equality
would fire on healthy runs. Only a collapse is a defect. Fail-safe when the
expected count is unavailable — an implementation that offloads
relationships out of memory may not be able to report a total, and a false
"your index is broken" is worse than a missed one.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(ingestion): qualify object-literal Property ids by their owning object

Two config objects in one file that share a key name generated the same
`Property:<file>:<key>` id and COLLAPSED INTO ONE node, so two distinct
settings became a single symbol. Worse, the merged name then looked
workspace-unique to name inference, which happily resolved reads of it to a
node representing both — a wrong edge in the pre-edit safety gate, which is
precisely what the unique-name pass is bounded to avoid.

`objectLiteralOwnerInfo` already existed for exactly this ("so two
constructors in one file that both define `bar` stay distinct nodes") but
was gated to `Method`. `Property` now opts in.

`findObjectLiteralBindingInfo` returns `ownerName` only when asked. Its
`Method` ids must stay byte-identical — qualifying them would rewrite every
object-literal method id in every indexed repo — while object-literal KEYS,
indexed only since A1/A5, have no such history to preserve.

Found by a test written for the ambiguity path rather than by review: the
suite reported one node where two were expected, and an edge where none
should exist. Both are now pinned, along with the detection boundaries of
the B2 collapse check, which was previously an untestable inline expression
and is now a pure function.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(typescript): index type aliases and shape members as symbols

A TS frontend models its API contracts as `type X = { … }` and `interface`,
so a field on one is exactly what "who breaks if I remove this?" is asked
about. Three gaps made that unanswerable, all in the TypeScript queries:

1. No `type_alias_declaration` -> `@definition.type`, so an alias minted NO
   NODE AT ALL and a context() lookup on an exported contract type answered
   "Symbol not found". TypeScript was the ONLY language missing this — Rust
   (type_item), Kotlin (type_alias), Swift (typealias_declaration) and Dart
   all emit it. The alias was declared for scope resolution but never became
   a graph symbol.
2. No `property_signature` in the parse query, so INTERFACE members minted no
   Property nodes either — the upstream report's "class/interface index fine"
   holds only for the type, not its fields.
3. No `property_signature` in the scope query, so even with nodes present the
   resolver had no member declaration to aim at. Its sibling
   `method_signature` -> `@declaration.method` already existed; only
   properties were missing.

Interface bodies and object-type aliases both spell members as
property_signature, so one pattern per query covers both shapes.

Lands the SYMBOLS, not yet the ACCESSES edges: the shape is already a
class-like scope and now has member declarations, but no edge forms — the
remaining link is owner/type-binding, recorded as todos with the diagnosis.
Note TypeScript sets fieldFallbackOnMethodLookup:false, so unlike JavaScript
there is deliberately no name-based fallback here; the precise path is the
only route by design.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(golden): accept interface members in the mini-repo snapshot

Drift is entirely the new TypeScript shape-member indexing: the fixture's
three interfaces (ValidationResult 2, DbRecord 3, LogEntry 3) contribute
exactly 8 Property nodes, each with exactly one HAS_PROPERTY owner edge.

Verified before regenerating rather than after: every pre-existing count is
untouched (CALLS 9, IMPORTS 12, DEFINES 16, HAS_METHOD 1, MEMBER_OF 12,
STEP_IN_PROCESS 12), so nothing was rewired — the digest moved only because
8 edges were added. The fixture's inline `return { valid: false, … }`
literals correctly produced nothing, confirming the object-literal rule
stays scoped to variable-bound literals.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(analyze): never report a collapse from a non-numeric count

The B2 check reported healthy runs as total graph-write collapses. A
non-numeric `expected` (a graph implementation reporting no total, a
lightweight pipeline result) does not skip the guards — it INVERTS them:
`undefined < 100` is false, so the small-repo exemption never fires, and
`0 >= undefined * 0.5` is `0 >= NaN`, also false, so the ratio check
"passes" as well. Both bounds silently evaporate and every such run is
flagged.

That is precisely the failure this check was written to catch, reproduced
inside the check itself: an unmeasurable quantity treated as a measured
zero. Both sides are now validated as finite numbers before any comparison.

`persisted` is also passed as UNKNOWN rather than zero when the DB was not
demonstrably readable: `getLbugStats` flattens "no connection", "query
threw" and "empty table" all into `edges: 0`, so `stats.nodes > 0` is used
as independent evidence the read happened at all.

Caught by the existing run-analyze suites, not by the new unit tests — those
exercised the pure function with well-formed numbers and were blind to the
integration's actual inputs. Both cases are now pinned.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(typescript): make object-type aliases own their members

A TS object-type alias declares the same `property_signature` members as the
interface beside it and answers the same question, but was not a member
owner: its fields were minted with bare ids and no owner edge, so two
aliases in one file sharing a field name collapsed onto one node, while the
identical interface resolved normally.

`type_alias_declaration` joins CLASS_CONTAINER_TYPES (and
CONTAINER_TYPE_TO_LABEL, as that set's invariant requires — a container
missing there gets orphaned member edges or a wrong owner label). Aliases
with no object type (`type Id = string`) declare no members, so they own
nothing and are unaffected.

This also lands the INTERFACE field -> consumer edges, verified on the
mini-repo fixture rather than only on a purpose-built one: `saveToDb` now
links to `ValidationResult.value`, and `formatLogEntry` to `LogEntry.level`
and `LogEntry.message` — three real contract-field reads that previously had
no graph path at all. Golden updated: +3 ACCESSES, no node changes.

The ALIAS field -> consumer edge is still not linked and is recorded as a
todo with the exact blocker: resolving a receiver typed as the alias needs
the NAME to resolve to a class-like def, and `isClassLike` is
Class|Interface|Struct|Record|Enum|Trait. That predicate is read from ~12
sites including MRO and heritage, and every language mints TypeAlias, so
widening it would enrol aliases in linearizations where they do not belong.
Widening only the scope index was tried and reverted — the type-name walkers
gate on it independently, so it fixed nothing and left dead code. That needs
a deliberate "shape-like" concept, not more call-site widening.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* docs(test): record the traced diagnosis for the unlinked alias field edge

Traced to the end rather than left as "needs investigation", so the next
attempt starts from facts:

  1. Graph side is COMPLETE and symmetric with the interface —
     Property:...:LiveModeConfig.bookSlots is owner-qualified and carries
     HAS_PROPERTY.
  2. Resolution DOES reach resolveClassBindingForName('LiveModeConfig')
     (instrumented) and misses.
  3. It misses because the module scope binds LiveModeIface:Interface,
     renderAlias, renderIface — and not LiveModeConfig. The alias has no
     binding on the receiver's scope chain at all.
  4. The TS scope query tags aliases @declaration.type, but normalizeNodeLabel
     accepts only typealias / type_alias and has no "type" case, so it returns
     undefined. Kotlin and Dart use @declaration.type_alias; TypeScript is
     alone on the dead tag.
  5. Retagging is NECESSARY BUT NOT SUFFICIENT — tried, and the binding still
     does not appear, so a second gate exists in how a declaration anchored on
     a node that is ALSO a @scope.class anchor is attached: the alias appears
     to bind inside its own scope rather than hoisting to Module, where
     interface_declaration evidently does hoist.

An isShapeLike predicate (the nominal-vs-structural split: shapes declare
members, nominal types participate in MRO) plus a mirrored
findShapeBindingInScope were built and REVERTED along with the retag. With no
binding on the chain they never fire, and shipping inert widening is worse
than shipping none — the same standard applied to the earlier scope-index
attempt. The design is recorded here; it is worth doing once step 5 is fixed,
and it also unblocks Rust's parked union_item, which the MEMBER_OWNER_NODE_TYPES
comment documents as the same gap in another language.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(scope-resolution): resolve cross-file value references, skip block-locals

Two halves of the same question, "who uses this constant?".

CROSS-FILE. `resolveReferenceSites` runs against the registries and, as its
own comment says, "imports live in finalized bindings the registries can't
see" — which is why free CALLS need `emitFreeCallFallback`. Reads had no
counterpart, so `import { LIMIT }` followed by a bare use resolved to nothing
while a CALL through the very same import statement resolved fine. This adds
the read/write counterpart, reusing `findValueBindingInScope` (which walks the
FINALIZED chain) rather than inventing a lookup. Confidence 0.9: the import
names the def, so this is precise resolution, not inference.

BLOCK-LOCALS. Bare-identifier capture also matches a read of a block-local
`const`, and an edge to one keeps alive exactly the inert locals
`pruneLocalSymbols` exists to drop — a pruned node becomes a retained node
plus an edge, in every function of every indexed repo. Emission now takes the
set of value defs bound at MODULE scope and drops ACCESSES to
Const/Variable/Static outside it. The cross-file pass carries the same
guarantee structurally: a def in another file cannot be a block-local of this
one, so it skips same-file hits entirely.

The block-local leak was already shipped in the intra-file A2 commit and was
found only because a test was written for the guard rather than the feature —
the same way the object-literal id collision surfaced.

Verified on the full resolver matrix: 3172 tests, golden unchanged.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(lbug): diagnose a vanished staging CSV instead of surfacing a Binder error

A forced rebuild could fail with "COPY failed for File: Binder exception: No
file found that matches the pattern .gitnexus/csv/file.csv" and then an ENOENT
on .gitnexus/csv/rel_Folder_File.csv — two engine-level messages that name
neither a cause nor a remedy, which is where several field reports end.

Only tables with rows > 0 enter the COPY manifest (csv-generator.ts), so an
absent file was WRITTEN during this run and removed since. Both COPY loops now
preflight and say exactly that, with the row count, both causes the reports
point at (a second `gitnexus analyze` on the same repo — they share
.gitnexus/csv — or an external cleanup of .gitnexus/), and the action to take.

Scope note, deliberately narrow: this does not attempt to fix WAL corruption
or checkpoint rotation. Those already have detection and recovery hints
(isWalCorruptionError, WAL_RECOVERY_SUGGESTION, the configurable
wal-checkpoint-threshold), and the ~6000 lines added to lbug/ + storage/ since
v1.6.9 — index-lock.ts most of all, which serializes writers and plausibly
closes the concurrent-run class outright — postdate every report in the
window. Guessing at unreproducible durability faults would be speculation;
making the one failure with NO handling legible is not.

An existing overlap test induced this exact scenario (a manifest entry
pointing at a missing csv) and asserted on the engine's wording. Its intent —
that a node-COPY failure is rethrown at the FK barrier rather than swallowed —
is unchanged and still asserted; only the message it matches moved.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(scope-resolution): split shape-like from class-like, linking alias fields

Completes A4: a field on a TypeScript object-type alias now links to the code
that reads it, the last unanswerable half of "who breaks if I remove this?"
for a TS frontend that models contracts as `type X = { … }`.

`isClassLike` answered two questions that only coincide for classes:
  1. does this declare MEMBERS I can look up?   — a SHAPE (structural)
  2. does this participate in inheritance / MRO? — a NOMINAL TYPE
An object-type alias is (1) and emphatically not (2) — it has no supertypes
and no place in a linearization. Widening `isClassLike` to buy (1) would have
enrolled every language's aliases (Rust type_item, Kotlin/Swift/Dart
typealias, C typedef) into MRO and heritage, so the two questions now get two
predicates. Call sites split by which they ask, and their names already said
which: `resolveInheritanceBaseInScope` and `resolveQualifiedInheritanceBase`
keep `isClassLike`; receiver typing and member OWNERSHIP take `isShapeLike`.

Three parts, each necessary and none sufficient alone:
- `findShapeBindingInScope`, mirroring `findValueBindingInScope`'s established
  relationship to `findClassBindingInScope` (same walker, different accepted
  def-type), consulted only AFTER the class lookup misses so a class of the
  same name always wins.
- `populateClassOwnedMembers` uses it, so alias members get an `ownerId` and
  are registered under the alias. Without this the receiver resolved to the
  alias and then found no members under it.
- The TS scope query tags aliases `@declaration.type_alias`, not
  `@declaration.type`: `normalizeNodeLabel` accepts typealias / type_alias and
  has no "type" case, so the old tag mapped to NO label and TypeScript aliases
  produced no scope-resolution def at all. Kotlin and Dart already spelled it
  this way; TypeScript alone was on the dead tag.

An earlier attempt concluded a further "scope-attachment gate" existed. That
was wrong and is worth recording: scope extraction runs in the parse WORKER,
which loads built `dist`, so the retag was never executed. Rebuilt, the alias
hoists to Module scope exactly as the interface does. Same trap as the parse
query — `src` edits to anything the worker runs are invisible until
`npm run build`.

Typedef and Union stay out of `isShapeLike` deliberately: they belong
conceptually (the union_item note on MEMBER_OWNER_NODE_TYPES records the same
gap) but neither is wired as a member container, so including them would widen
a predicate nothing exercises.

Verified on the full resolver matrix: 3173 tests, golden unchanged.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(typescript): pin the type-alias capture to a tag that maps to a label

The capture test asserted `@declaration.type`, the tag that
`normalizeNodeLabel` does not recognize (it accepts typealias / type_alias and
has no "type" case). So the test passed for as long as the tag was broken: it
checked only that the capture FIRED, never that it resolved to anything, while
TypeScript aliases produced no scope-resolution def at all.

Updated to the working tag and given a second assertion that the derived kind
string is one the label mapper accepts — the property that actually matters,
and the one whose absence let a dead tag sit pinned.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(lbug): declare TypeAlias member pairs so analyze does not abort

Making object-type aliases member owners emits HAS_PROPERTY from a `TypeAlias`,
and the relation schema declared no such pair. The emit therefore threw
`UndeclaredRelationPairError` and the ENTIRE analyze died on any repo
containing `type X = { ... }` — a hard stop, not a dropped edge. Found by
running the analyzer over a real 16k-node TypeScript repo, not by a test.

`Method` is declared alongside `Property`: a member written
`type Handler = { onClick(): void }` is a method_signature and would fail in
exactly the same way.

Why every existing test missed it: the resolver suites build an in-memory
graph via `runPipelineFromRepo` and never write to LadybugDB, so the schema
constraint was never exercised. `structural-pair-coverage.test.ts` is the one
suite that does run the emitters against the declared pairs — and its own
docstring names the gap: coverage is bounded by NON_BRIDGE_CORPUS, "a new
structural emitter should land with an entry here". This adds that entry,
pinning TypeAlias|Property and Interface|Property as sentinels.

Verified the guard is not vacuous: removing the pair again makes the suite
fail with undeclaredPairs: ["TypeAlias|Property"].

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(processes): trace depth-first so multi-hop flows are detected

D1 ("query ranks frontend components above the backend module that owns the
concept") and D2 ("processes is dominated by trivial mechanical chains") are
the same defect, and neither is about ranking or selection.

The walk stops after a fixed NUMBER of traces, so traversal order decides which
traces those are. Breadth-first reaches every shallow terminal before any deep
one, so the quota filled with the shortest paths in the graph and the walk
stopped — `maxTraceDepth: 10` was never approached. Measured on a real repo
before the fix: of 300 processes NONE exceeded 7 steps and 90% were 3-4. A
multi-hop business flow (signal → order → exit) therefore had no process that
could represent it, and `query` could only rank the mechanical pairs that did
exist. Step 4 of the caller already sorts by length and dedupes by endpoint —
it was always asking for the deepest traces this walk could give it.

Depth-first descends to a terminal first, so the same quota is spent on paths
worth keeping. Cost is unchanged: same budget, same cycle guard, same depth
ceiling — only the order differs.

Measured on the same 16k-node repo, same build and flags, BFS vs DFS (an
earlier comparison was discarded as confounded — it crossed builds and --pdg):

  steps   6-8:  50 → 168   (3.4x)
  totals:      844 → 806

and the reported query moved from `LiveSetupView → Cn` (a React component) to
`ReconcilePositions → IsTpInProfit / WithHeld / ShouldNotify` — server-side
exit management, which is what was asked for.

`traceFromEntryPoint` is exported for the test. Traversal order is unobservable
through `processProcesses`: `findEntryPoints` supplies several starting points,
so a deep chain is traced from inside it whatever the order does. A test at
that level passes under BOTH traversals — the first version of this test did
exactly that and guarded nothing. Driving the walk directly, it fails under
breadth-first with "expected 3 to be greater than 3".

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* docs(test): correct a stale status note left behind by a later fix

The A1/A5 header still said "edge resolution REMAINING ... neither is
implemented". Both shapes resolve — the typeable receiver precisely, the
untyped one by workspace-unique name — and the tests below assert exactly that,
so the note contradicted the file it sat on.

It was accurate when written and went stale when the work continued past it.
Left as-is it would tell a reviewer that a landed feature is missing.

The TRAP note is kept: the parse worker still runs built dist under vitest, and
that is still the trap it describes.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(scope-resolution): index literals behind identity-preserving wrappers

`export const INERT_EXIT_CONTRACT = Object.freeze({ ... })` minted no
`Property` node for any of its keys. The object-literal rule matches
`variable_declarator > value: (object)` as a DIRECT child, and freezing puts a
call expression in between — so the shape whose fields are most worth querying
was the one shape the rule could not see. Freezing a config object is how JS
publishes an immutable contract, which is why this reads as a confident zero
on exactly the fields a reader cares about.

The allowlist is three functions, not "any call". `Object.freeze`, `seal` and
`preventExtensions` RETURN THE ARGUMENT THEY WERE GIVEN, which is what makes
the literal's keys members of the bound name. For `const x = compute({ a: 1 })`
the literal is an argument and `x` holds compute's return value, so attributing
`a` to `x` would be a fabrication.

Two negative controls, because the obvious one is vacuous: a bare-identifier
callee is rejected structurally and would pass with no allowlist at all, so the
assertion that actually pins the predicate uses `Object.entries` — identical
shape, differing only by name. Verified load-bearing by adding `entries` to the
allowlist and watching that test alone fail.

SCHEMA_BUMP 46 -> 47: parse-time emission, so a warm cache replays the pre-fix
capture set. Observed as a false negative first — `analyze --force` returned
the old node set until the on-disk cache was removed by hand.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(scope-resolution): narrow multi-candidate property names by scope

Workspace uniqueness was the wrong denominator. Measured on the reporting
repo: `exitMinAtrMult` has 26 `Property` definitions — 16 in one-off
`scripts/`, 7 in the frontend, one in a test, and exactly ONE in the backend
that reads it. Every backend read was refused because of competitors the
reader cannot see. The gate was not too permissive or too strict, it was
scope-blind.

A name with several definitions is now narrowed before being abandoned:
same-file first, then files the reading file directly imports, using the
finalized import graph rather than a path-shape heuristic. Exactly one
survivor at the first non-empty tier resolves; anything else stays refused.
A tier holding several candidates stops the walk instead of falling through —
local evidence that is itself ambiguous still contradicts reaching further out.

Confidence stays 0.5 at every tier. Narrowing changes which candidate is
chosen, not the kind of claim: it is still a name match, and the round-1
contract is that filtering on confidence drops all name inference at once.
The reason string now names the tier that fired.

Ambiguity reporting goes from a count to the actual names (capped), because a
count says a gap exists while the names say which fields are unanswerable.

Measured on that repo, backend readers of `exitMinAtrMult` go 0 -> 24 and
total readers 9 -> 45, including the two call sites in
`oppositeSignalExitManager.js` the report singled out. Both narrowing tests
were mutation-checked by dropping the import evidence and confirming they, and
only they, fail.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(scope-resolution): capture destructured parameter keys as property reads

`function exit({ exitMinAtrMult = 0 })` reads that property off whatever the
caller passes, exactly as `cfg.exitMinAtrMult` would. It never appears in a
member_expression, so it had no reference site at all — and this is the shape
the function that IMPLEMENTS a behaviour uses, so the most relevant reader was
the one systematically missing from "who reads this setting?".

Uses a distinct `@reference.read.destructured` anchor rather than
`@reference.read.member`. The latter is filtered emit-side to matches with a
member_expression ancestor, because calls and writes share its shape, and a
destructuring pattern has none — reusing the tag would have been silently
dropped by that filter. The `read.` head already maps to a read kind, so no
mapping change is needed.

Scoped to formal_parameters. A destructuring binding elsewhere
(`const { x } = require('m')`) is frequently an import rather than a field
read, and minting a property read there would attribute module bindings to
unrelated same-named keys.

All three cases (default value, bare shorthand, renamed key) mutation-checked
by removing the patterns and confirming those three tests, and only those,
fail. The renamed case also asserts the edge points at the KEY and that the
local alias mints nothing.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(scope-resolution): link type consumers to the type they name

An exported contract type owned its members after round 1 and still answered
`incoming: {}`, so "what breaks if I remove this field?" — the question a
contract type exists to answer — had no edge to walk. Measured on the
reporting repo: all 324 TypeAlias nodes AND every Interface node had DEFINES
as their only incoming edge.

Two independent causes, and the second is why the first was not enough.

TypeScript captured no type references at all — only cpp and csharp did — so
an annotation naming a declared type minted no reference site. Added for
annotations, generic arguments and `as` assertions, anchored to those contexts
rather than a bare `(type_identifier)`, which would also match the name in
`type X = …` and make every declaration a consumer of itself.

That alone fixed interfaces and left aliases still empty. `TypeAlias` was
missing from `LINKABLE_LABELS`, so alias graph nodes were never indexed in
`nodeLookup` and `resolveDefGraphId` could not bridge a def to its node — the
edge was dropped AFTER a successful lookup. `CLASS_KINDS` has always listed
TypeAlias and the ClassRegistry returned the def correctly, which is what made
this read as a resolution failure; instrumenting the lookup showed it
returning the right def all along and moved the search one table over. Exactly
the bug already documented two entries above it for Trait.

Fixes every language that spells an alias this way — TypeScript, Kotlin, Dart
and Rust all emit `@declaration.type_alias`.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(scope-resolution): capture record construction as property writes

The read side answered well after the narrowing work while "who SETS this
field?" still missed the code that stamps the value. A record built inline —
`return { exitContract: { exitMinAtrMult: settings.x } }` — is bound to no
variable, so it minted no definition and its keys referenced nothing.

Modelled as WRITE REFERENCES, deliberately not definitions. The round-1 rule
already mints Property nodes for literals bound to a variable; minting more for
anonymous records would add same-named competitors to the very name-narrowing
that makes these fields resolvable — measured at 26 competing definitions for
one field on the reporting repo, which is what made every backend read
unanswerable in the first place. A construction site is a USE of a field, not
another declaration of it.

Two positions only: nested under a key, and returned. Both are records with a
name attached (the key, or the function). An inline call argument
(`doThing({ id: 1 })`) stays excluded for the same reason round 1 excluded it
from definitions — it is call-site data, not a named surface — and is asserted
as such.

The enclosing literal is the receiver and it is anonymous, so these route
through the same narrowing and the same refusal-to-guess as every other
untyped receiver.

Verified on the reporting repo: `entryPlan.js` went from no rows to
`selectExitEnvelope` as a writer of `exitMinAtrMult`. Both captures
mutation-checked.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(processes): select round-robin by terminal so the list is not one flow repeated

Ranking was `sort by length` alone, so the top of the list was one behaviour
described many ways: eleven of the top fourteen processes on the reporting
repo were four entry points crossed with three terminals of the SAME
date-window utility cluster. Genuine call chains, but a reader learns one
thing from fourteen entries, and the repo's own domain flows sat below them.

Selection now round-robins across TERMINALS, deepest first. Depth still orders
within a terminal and still leads the list; what changes is that no terminal
takes a second slot until every other has had a first.

Keying on the entry point was tried first and made it worse — many files
declare a `main`, so each was a distinct entry that round-robin then awarded
its own slot, and `Main -> AlignWindowEnd` went from one row to eight. The
repetition was never in where a flow starts.

Measured on that repo: distinct terminals in the top 20 went 3 -> 20, and its
domain flows (`ReconcilePositions -> ...`) moved into the top 4%.

Two things this deliberately does not claim. The reported cause — ranking
rewarding fan-in, promoting chains ending in widely-called helpers — measured
FALSE: those terminals have one caller each (`alignWindowStart` 1,
`validateSymbol` 1). A fan-in discount was implemented against that hypothesis,
measured, and reverted for moving nothing. And a business flow still cannot be
a process in its own right: the walk only emits at a leaf, at max depth, or on
a cycle, so a flow whose meaningful endpoint calls onward survives only as
whatever leaf it bottoms out in. Both are recorded in the code so neither
reads as settled.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(structural-pairs): pin the type-annotation USES pair

R2-2 emits USES INTO a `TypeAlias`, so the pair is `Function|TypeAlias` — a
different table from the `TypeAlias|Property` entry added in round 1, and one
that entry stays green without. `TypeAlias` is on the eleven-table list this
suite exists for, and an undeclared pair does not degrade: it throws
`UndeclaredRelationPairError` and kills the entire analyze on any repo
containing an annotated type. Every resolver suite still passes, because they
build an in-memory graph and never write to the DB.

That exact failure shipped once in this PR already. Two emitters into the same
label, each with its own way to reach a released build.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(scope-resolution): build the module-level set before the out-of-core seal

Review blocker. Under `GITNEXUS_DISK_SCOPE_INDEX=1` the seal replaces every
ParsedFile with a scope-STRIPPED copy, and the block-local filter's set was
built after it — so it walked `scopes: []` for every file, came out empty, and
the filter read that as "no def is module-level" and dropped EVERY
`Const`/`Variable`/`Static` ACCESSES edge in the repo. All languages, all
files, including the module-scope-const edges this PR exists to add. Nothing
threw and nothing logged, on the path the largest repos take: the exact
confident-empty answer the PR is about.

Built above the seal now, from `parsedFiles`, and passed as `undefined` rather
than an empty set when no scope was inspectable — an empty set is a legitimate
answer ("this repo has no module-level value defs") and must not be
indistinguishable from "could not look". Fails open; the block-local exclusion
is still asserted under the seal, since that is correctness rather than
optimization.

Also widens module level past `kind === 'Module'`. A `Namespace` scope (TS
`namespace`, Rust `mod`, C++/C# `namespace`) holds importable values too, and
treating its consts as function-locals dropped their reads. Included only when
the whole chain to the root is Module/Namespace, so a namespace declared inside
a function body stays local — asserted both ways.

That fixture then failed for a third reason: `@reference.read.identifier`
existed ONLY in the JavaScript query, so A2 did not work for TypeScript at all.
Added there, and both languages widened to `variable_declarator value:` and
`binary_expression` operands — the gaps review named between what A2 claimed
and what it matched.

Nothing covered `GITNEXUS_DISK_SCOPE_INDEX`. The new parity test asserts the
seal changes no edge, and was verified against an emulation of the original
bug: same-file readers vanish and only the cross-file reader survives.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(typescript): anchor property_signature to declared shapes

Review blocker, and it reproduces end to end. `property_signature` occurs in
EVERY object_type in the TS grammar, not only in an interface body or an
alias's object type, so inline parameter types, inline return types and nested
object types all matched — and the enclosing-container walk hung each one off
the nearest class, interface or alias. Measured against the unanchored rule,
all four appeared as members of shapes that do not have them:

  Property:contracts.ts:Svc.inlineParamOnlyKey
  Property:contracts.ts:Repo.inlineQueryOnlyKey
  Property:contracts.ts:NestedConfig.nestedOnlyKey
  Property:contracts.ts:buildInline.inlineReturnOnlyKey@46:33

When the inline member shares a name with a real one — `run(opts: { retries:
number })` inside a class that declares `retries` — `addNode` is
first-write-wins and the two distinct symbols merge onto one node, so every
context()/impact()/rename() answer about that field describes the merge. The
sibling JS object-literal rule in this same PR is anchored for exactly this
reason; this is the TypeScript half of the same fix.

`(A (B))` matches DIRECT children, so nested object types are excluded by the
same anchor rather than by a second rule.

The first version of these tests was VACUOUS and is recorded here because the
reason generalizes: a collision and a correct exclusion both leave exactly one
node behind, so counting ids cannot distinguish them. Every inline member in
the fixture is now uniquely named, which is the only thing that discriminates —
verified by restoring the unanchored rule and watching exactly those four
assertions fail. A fifth test asserts anchoring costs no real member.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(analyze): correct the numbers feeding the graph-write-collapse guard

Review blocker. The predicate itself held under adversarial probing; every
defect was in what it was handed and what happened after it fired.

(a) `expected` was wrong twice. Under `GraphEmitSink` streaming the bulk types
leave the heap at parse time and never enter `relationshipCount`, so the count
understated the real volume by most of it and the ratio passed trivially —
on `force === true` runs, which include crash recovery AND the
`analyze --force` retry this check's own warning tells the operator to run.
Adds the manifest totals, the same correction the buffer-pool hint in this file
already makes for the same reason. Separately, an incremental run persists only
the changed subgraph while both counts are whole-scope: a 10,000-edge index
that lost 200 replacements reads 9,800 and is certified complete. The check is
skipped on that path rather than answered wrongly.

(b) A throwing edge count became a measured zero. `getLbugStats` initialised
its total to 0 and ran the query in a swallowing catch, so WAL/lock contention
during finalize — documented on this exact call — reported a healthy index as a
total collapse. It now returns `number | undefined`, and the caller requires
both a readable node count and a defined edge count.

(c) A total loss was exempted for being small. The min-edges rule tested
`expected` before looking at `persisted` at all, so `expected = 99,
persisted = 0` — every edge gone — stayed fresh and reported success. Total
loss is now decided first. The existing test asserted the defect; it now
asserts a PARTIAL shortfall, which is the case the exemption was written for.

(d) A detected collapse reported success and exited 0. It is different in kind
from the other incomplete reasons: those describe a run that did what it said
and left work for later, this one means most of your edges are gone and every
query answers a confident empty. The CLI now prints INCOMPLETE with the counts
and sets a non-zero exit code, and the flag crosses IPC so the worker cannot
send a clean `complete` either.

Nothing exercised this wiring — only the pure helper. Adds tests for all four,
each written so the pre-fix arithmetic fails it.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(scope-resolution): keep unique-name property inference inside one language

The pass indexed `Property` nodes from the whole shared graph. Per-language
gating decides whether it RUNS for a language; it never restricted which nodes
could be TARGETS. So the only carrier of a name could be in another language
entirely, and a read here resolved to it on name uniqueness alone — no owner,
no file, no call path.

Reproduced: a Java class declaring `private int loyaltyPointsBalance` and a JS
`cfg.loyaltyPointsBalance` on an untyped parameter produced an ACCESSES edge
from the JS function to the Java private field. Confidence does not mitigate
it, because `minConfidence` defaults to 0 — the tier is only a filter for
consumers who ask for one.

Candidates are now restricted to files in the language's own `parsedFiles`,
which is a precise restriction rather than a heuristic and needs no new node
property.

Every other fixture in the suite is single-language, so this could not be
caught anywhere by construction. The new fixture is deliberately polyglot and
asserts both halves: no cross-language edge, and a same-language unique name
still resolves.

Known and not addressed here: the index is still O(total graph nodes) and is
rebuilt once per qualifying language, the per-language whole-graph-scan pattern
`phase.ts` hoisted out for `sharedNodeLookup`. Hoisting it belongs with that
machinery rather than in this fix.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(processes): explore siblings in source order, log the exhausted budget

`slice(0, maxBranching)` selected the FIRST N callees while `pop()` explored
them LAST-first, so the trace budget went to the last-declared branch. For
`main() { init(); loadConfig(); run(); shutdown(); }` the walk spends itself on
`shutdown` and can drop `init` — the earliest steps of a flow, which is the
opposite of what a process describes. Selecting first-N and exploring last-first
was simply inconsistent; pushing in reverse makes the stack pop in source order.

Measured on the reporting repo, this costs depth: 6-8 step processes go 168 ->
146 of 816. Still roughly three times the pre-PR baseline of 50, and the right
trade — a deep branch is no longer reached by accident of being declared last.

The remaining limit is the BUDGET, not the traversal: with a fixed quota a deep
branch declared after enough shallow ones is not reached at all. That is now
asserted in both directions rather than left implicit, and the walk logs when it
stops with branches unexplored — a silently truncating cap reads as "this is
everything", the same confident-empty answer this work is about, and the repo
already sets that precedent for `dispatchFanoutSkipped`.

Removes the second depth test, which was vacuous: the note twelve lines above
it already said a `processProcesses`-level depth assertion passes under BOTH
traversals, and measured it does — breadth-first yields the same deepest
stepCount of 8, so it passed with the production change reverted. Traversal
order is asserted against `traceFromEntryPoint` directly; what is observable at
the pipeline level is which traces survive selection, which the diversity tests
cover.

Also renames `queue` to `stack` and corrects the BFS references in the module
docstring and the function's own JSDoc, which is what an IDE hover shows.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(impact): carry riskNote onto ambiguous candidates and separate UNKNOWN's two meanings

Two problems on the ambiguous fan-out, which builds its own candidate object
rather than returning the single-symbol shape.

The narrowed type had no `riskNote` field and never read one, so a candidate
that resolved and found no callers reported `risk: UNKNOWN` with nothing
attached — losing the entire point of the change on the path where the reader
has the least context, since the name is ambiguous there by definition.

And `UNKNOWN` used to mean exactly one thing on this path: the probe threw. The
zero-caller branch gives it a second meaning, so an all-UNKNOWN fan-out could
no longer be told apart from a broken one. Candidates now carry `probeFailed`,
and the comment asserting the old reading is corrected.

Also aligns `gitnexus-web`, which review flagged as giving a different verdict
for the same symbol. That surface answers in prose rather than an enum, and its
message said the symbol "appears to be unused (not called by anything)" — the
identical false certainty in words. It now carries the same MEANING rather than
the same field. Downstream wording is unchanged: no outgoing dependencies
really is a fact about the symbol itself.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test: replace assertions that cannot fail

Four from review, each satisfied by the defect it was meant to catch.

`new Set(props).size === 2` over two different literal strings can only ever
be 2, so it could not detect the node merge its title promises — that is a
difference in COUNT, now asserted on the raw array.

The ambiguity test asserted only an empty edge set, which is satisfied equally
by "the gate fired" and "the name was never looked up". It now also requires
the ambiguity counter to have moved.

`Interface|Property` was listed as a structural-pair sentinel beside
`TypeAlias|Property`, but both its labels are in the SCOPE_BRIDGE cross-product
so the pair is generated by construction and the sentinel cannot fail. Dropped
rather than left reading as coverage; `TypeAlias|Property` is the load-bearing
one.

`TypeAlias|Method` was declared in the schema with no fixture emitting it — a
declared pair no emitter exercises is indistinguishable from a missing one
until an analyze aborts on a real repo. Adds a method-shaped alias member, and
the suite requires sentinels to actually appear, so it is not vacuous.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* docs: document the new incomplete reason, the UNKNOWN verdict and the id churn

Review found the code changes landed without the guidance around them, and an
agent following this repo's own rules would have been told the wrong thing.

`graph-write-collapsed` joined `INDEX_INCOMPLETE_REASONS` with no Sign block
and no recovery section, while the precedent it cites
(`embedding-checkpoint-pending`) has both — so `gitnexus status` would surface a
new string naming silent wrong answers with nothing explaining trigger or
remedy. Added to RUNBOOK and GUARDRAILS, including why this reason alone also
fails the exit code.

`AGENTS.md` said MUST warn on HIGH or CRITICAL and never mentioned UNKNOWN, and
the shipped impact skill's risk table had no UNKNOWN row and still implied
few-callers ⇒ LOW. An agent obeying those rules literally sees `risk: UNKNOWN`
and proceeds, which negates the change the verdict exists to make. Both copies
of both skills updated.

`MIGRATION.md` now records that process ids do not survive this release —
positional ids plus depth-first tracing, source-order siblings and round-robin
selection mean `proc_7_handle` is a different flow afterwards. Bounded honestly:
nothing in-repo joins on a raw process id, so it is index churn, not a broken
consumer.

`ARCHITECTURE.md`'s scope-resolution stage list gains the two new stages.
The guide skill's node list gains `Property` and `TypeAlias` — the two node
types this work most prominently creates.

Also, on the pair-CSV preflight review asked to confirm: the hard abort IS
deliberate, because a fallback recovering zero rows is the confident-empty
failure this work targets. But the transient the message itself names — a second
concurrent analyze sharing `.gitnexus/csv` — is a race, so the check now
re-looks three times over ~150ms before declaring the file gone. Long enough to
ride out a rename, far too short to mask a file that is genuinely missing.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix: drop redundant TypeAlias pairs and keep bare identifiers off class members

Two regressions the full suite caught after the review fixes, both real.

`schema-pair-coverage` failed with eleven hand-declared pairs that a rule now
generates. Adding `TypeAlias` to `LINKABLE_LABELS` — needed so
`resolveDefGraphId` can bridge an alias def to its node — also makes it a
SCOPE_BRIDGE source and target, so the cross-product produces `File|TypeAlias`,
`TypeAlias|Property` and nine others that round 1 had declared by hand. Removed;
the invariant is that no pair is both generated and hand-declared.

This also changes what the structural-pair sentinel means, and the comment is
corrected rather than left overstating it: `TypeAlias|Property` is no longer
load-bearing because the label is off the generated grid — it is load-bearing
because it now depends on `TypeAlias` being IN `LINKABLE_LABELS`. Remove it and
the pair stops being generated while the hand declaration is gone, which is the
same state that silently breaks alias consumer edges.

`block-scope-shadowing` failed because a bare identifier resolved to a class
`Property`. `class Box { baseUrl = '...'; pick() { const baseUrl = ...; return
baseUrl; } }` linked the block-local read to `Box.baseUrl`, duplicating the
legitimate `this.baseUrl` edge. A bare identifier is not a member access: with
no receiver there is no object whose property it could be, and in JS/TS a field
read needs `this.`. Receiver-less read/write sites no longer accept `Property`
hits; callables stay reachable, so `cb = save` naming a top-level function is
unaffected.

That defect PREDATES this branch's TypeScript captures — JavaScript has emitted
bare-identifier reads since A2 and no class fixture exercised the shadow. The
TS parity added here is what surfaced it.

Golden snapshot regenerated after verifying the drift line by line: exactly
+5 USES from type annotations in the mini-repo, every pre-existing count
unchanged, so nothing was rewired.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* perf(scope-resolution): share the property-name index across language passes

Review follow-up. `indexPropertyNodesByName` scanned every node in the graph
and was rebuilt inside each qualifying language pass, reintroducing exactly the
pattern `phase.ts` hoisted out for `sharedNodeLookup` — whose comment records
why it matters: "the previous per-language rebuild burned that CPU+heap N times
and, on a huge repo, a tiny language's full-graph copy overlapped the next
language's — a real contributor to the scope-resolution memory peak."

Built once in `phase.ts` beside `sharedNodeLookup` and `sharedFnNodeIndex`, and
threaded through the same `prebuilt*` seam, so tests and isolated calls still
build their own.

Sharing is only safe because the per-language restriction MOVED rather than
disappeared: the shared index is whole-graph, and candidates are filtered to
the language's own files at lookup time. That also fixes a subtlety the
per-language build had backwards — the cap now applies to the FILTERED set, so
a name carried by forty properties across a polyglot monorepo but only two in
the language being resolved is still answerable, where a global cap would have
refused it.

The tri-state at the lookup boundary is deliberate and the three outcomes are
not interchangeable: no property of this name in this language (nothing to say,
and NOT an ambiguity), too many to choose between (reportable), or a list to
narrow.

Caught mid-change by the polyglot fixture: an intermediate state shared the
index without moving the filter, and the cross-language edge came straight
back. That test earning its keep twice is the reason it exists.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(scope-resolution): report when a field's only anchor is another language

Round 3, found OUT-OF-SAMPLE — six field names appearing in no prior report, so
nothing here was tuned against them. All six answered 0 backend ACCESSES while
their definitions sat in `apps/research-dashboard/**`: TypeScript only. The
in-sample set scored 5/5 and the out-of-sample set 0/6, and the gap is entirely
this.

Per-language inference (`3c5eadc7`) is right and stays. What was wrong is that
declining is INVISIBLE: an empty result for a field anchored only in TypeScript
is byte-identical to an empty result for a field nobody reads. One says "look
in the other language or grep"; the other says "delete it". That is the same
confident-empty failure this series exists to remove, one surface over — and
this time the missing fact is about the ANALYZER's reach rather than the code.

Declines are now counted and named, with the languages the anchors actually
live in, kept SEPARATE from ambiguity because the remedies differ: ambiguity
wants better receiver typing, this wants an anchor in the reading language.
Collapsing them would tell a reader the wrong thing to do. A non-zero count
warns at analyze time regardless of dev mode.

The facts are published as `PipelineResult.propertyInference`, which they had
to be for any of this to be testable — and that exposed a second defect. The
round-2 ambiguity assertion, which I told the reviewer of #2856 I had
strengthened, read its stat off a `scopeResolution` field that does not exist
on PipelineResult: the `if (undefined) return` guard swallowed it and the test
passed with the production code deleted. Both that assertion and the new ones
now read the published field, and the guard is an assertion rather than an
escape. Verified by deleting the counter and watching them fail.

Reported by the same round-3 method note that caught it: verifying a fix
against the cases it was written for only proves those cases pass.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(context): explain an empty property result caused by a cross-language anchor

The other half of R3-1. The analyze pass now knows which fields it declined to
link because every definition of the name lives in another language; this puts
that fact where it is actually read.

`context()` on such a field previously returned an incoming list byte-identical
to a genuinely unread field. The two demand opposite actions — "look in the
other language, or grep" versus "delete it" — so the difference has to travel
with the answer:

  unresolved: property reads of this name were NOT linked: every definition of
              it is typescript, and name inference does not cross languages.
              An empty or short incoming list here is not evidence the field is
              unused — confirm with a text search, or give it an anchor in the
              reading language.
  anchorLanguages: ['typescript']

Carried through repo meta because the graph cannot answer it: the unlinked
reads mint no edge and no node, so the only record is the pass that declined
them.

Keyed on the NAME, not on the resolved label. Gating on `=== 'Property'` was
tried first and is wrong — the label reads `''` on this path for a plain
Property node, so the gate silently suppressed the entire feature while every
test still passed. Caught by asserting the field is DEFINED rather than
guarding on it, which is the same anti-pattern that made two earlier
assertions vacuous. The meta list only ever contains property names, so
matching the name is itself the type check.

Cached per (index, indexedAt): `ensureInitialized` deliberately avoids a
per-call `loadMeta` because every tool routes through it, so this re-reads
exactly when a re-analyze could have changed the answer and never otherwise.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(scope-resolution): report declined property reads for opt-out languages too

Generalizing R3-1 rather than waiting for it to be re-reported in the other
direction. The reported case was a JavaScript read whose only anchor was
TypeScript; the mirror — a TypeScript read anchored only in JavaScript — was
still silent, because a language that sets `fieldFallbackOnMethodLookup: false`
had the whole pass skipped, and skipping emission also skipped REPORTING.

Detection is not inference. Counting what could not be linked asserts nothing
about what it means, so `reportOnly` runs the pass for its facts while emitting
no edge, and the opt-out keeps protecting exactly what it protected before.

Two things this turned up that a single-instance fix would have missed:

The cross-language fixture could NOT prove `reportOnly` is load-bearing — the
per-language candidate filter already blocks those edges, so the assertion
passed with the flag forced off. The case that discriminates is a SAME-language
TypeScript read that name inference could legitimately link and the opt-out
forbids; forcing the flag off there emits `readsTsOnly -> tsOnlyBudget`, which
is the violation.

Getting to that case surfaced a sibling gap, recorded but NOT fixed here: the
object-literal `Property` rule is JavaScript-only, so `const CONFIG = { ... }`
in a `.ts` file mints no node and its keys are invisible. The first draft of
this fixture used exactly that shape and could not discriminate for that reason.
It is the TypeScript half of R2-1a and wants its own change, not a rider on
this one.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(typescript): index object-literal keys, as JavaScript already did

The sibling recorded in `0c5a4f64` and deliberately left out of it. Both the
named object-literal rule (A1/A5) and the identity-wrapper rule (R2-1a) lived
only in JAVASCRIPT_QUERIES, so the single most common config idiom in
TypeScript —

    export const tsRuntimeConfig = { tsConfigRetries: 3 };

— minted no node for any key. `context()` answered "Symbol not found" and a
precise read through the holding variable had nothing to resolve to.

TypeScript sets `fieldFallbackOnMethodLookup: false`, so these gain no
name-based inference. What they gain is the PRECISE path, which is the route
TypeScript is meant to use: `tsRuntimeConfig.tsConfigRetries` has a typeable
receiver and now resolves. A read through an untyped receiver stays unresolved
and, since `0c5a4f64`, is reported as such rather than answering an empty set.

Scoped exactly as the JavaScript rules are — bound to a variable, and for the
wrapper only the three functions that return the argument they were given —
with the same `Object.entries` negative control pinning the allowlist.

Found by fixture, not by report: the first draft of the `reportOnly` test used
a TS `const CONFIG = { ... }` as its discriminator and could not discriminate,
because the shape mints nothing. That is the whole argument for sweeping a
class instead of waiting for each instance to be filed.

SCHEMA_BUMP 47 -> 48: parse-time, so a warm cache replays ParsedFiles carrying
none of these matches and the keys stay invisible.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(scope-resolution): anchor anonymous returned object literals to their function

The last gap round 3 named, and the dominant shape in idiomatic JS: 437
`return {` sites in a single backend directory of the reporting repo, including
the ~25-field payload of its entire signal pipeline. The literal binds to
nothing, so its keys could not even be named — "who reads wickRatio?" had no
symbol to ask about.

The enclosing FUNCTION is the owner: the literal is that function's return
shape, a contract its callers consume. Keys qualify as `<function>.<key>`, so
two functions returning the same name stay two shapes rather than one merged
symbol, and multiple returns in one function stay distinct by position.

RECONCILING THIS WITH R2-1b, which deliberately modelled returned keys as WRITES
to avoid adding same-named competitors to narrowing. These are definitions, but
narrowing now ranks DECLARED anchors — named literals, class fields, interface
and alias members — strictly above return shapes. A name that already resolved
keeps resolving to what it resolved to before, so the competitor problem R2-1b
was avoiding cannot come back. Mutation-checked: dropping that ranking breaks
five pre-existing R2 resolutions.

That also required an R2-1b assertion to change, and the change is a
strengthening rather than a concession. It asserted `toHaveLength(1)` — no new
definition — as a proxy for "adding definitions must not move an existing
answer". The proxy is now false while the property still holds, so the property
itself is asserted directly.

No `HAS_PROPERTY` edge from the function: that would be a `Function|Property`
relation pair the schema does not declare, and an undeclared pair does not
degrade — it throws and kills the whole analyze. That already shipped once in
this PR.

Two things found by dumping rather than assuming, both fixed here:

SHORTHAND keys were not matched at all. `return { symbol, interval, score }` is
the commonest spelling and the reporting repo's own payload is mostly this form,
but tree-sitter models it as `shorthand_property_identifier`, which `(pair)`
does not match. Caught by dumping the golden fixture and seeing a literal
returning `{ level, message, timestamp: Date.now() }` had indexed only
`timestamp`. Now covered in return position AND in the variable-bound rule,
which had the same gap.

Provenance was flagged by owner-presence, which mislabelled the anonymous case:
a callback's return shape yields no name to qualify by, so it looked like a
DECLARED anchor and would have outranked real declarations. Flagged by position
now — a different question from whether a name could be derived.

SCHEMA_BUMP 48 -> 49. Within one PR the version only has to differ from main's,
but a build stamped 48 was installed and used to analyze before these captures
existed, so caches stamped 48 carry none of them — the intermediate-build hazard
this ledger already records for 33/34.

Golden regenerated after verifying the drift: exactly +10 Property and +10
DEFINES, every pre-existing count unchanged.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(scope-resolution): rank production anchors above test fixtures

Found by testing R3-4 on the reporting repo instead of on its fixtures. Anchoring
returned literals took `wickRatio` from 6 definitions to 13 — and backend reads
still resolved to nothing, because SEVEN of the new JavaScript anchors compete
and four of them are in `tests/`. A test constructs throwaway shapes carrying
production field names; a read in shipped code cannot mean one of them.

Applied before the declared/return-shape split, because "is this the shipped
program" is the stronger signal — a declaration inside a test fixture is still a
test fixture. Skipped when the READER is itself a test, since a read there
legitimately means the test's own shape.

The first version of this test was vacuous and the mutation check caught it: the
reader sat in the same file as the production anchor, so the same-file tier
resolved it whether or not this tier existed. The reader now lives in a file
that imports neither anchor, which leaves production-vs-test as the only thing
that can decide.

Honest about what this does NOT do: it narrows `wickRatio` from seven candidates
to three, and three functions in different files each returning that field is
GENUINELY ambiguous — refusing is correct, and the ambiguity is now counted and
named rather than silent. The reported question ("who reads wickRatio?") is
answerable only where one producer exists; where several do, the honest answer
is the list of producers, which R3-4 made nameable for the first time.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(scope-resolution): resolve members through a call result's return shape

The question three rounds of reports could not answer, and the one narrowing
must refuse by design: a field produced by SEVERAL functions. A read of
`spike.wickRatio` could mean any producer, so name inference correctly declines
and no amount of tier-tuning changes that. It needs evidence, not inference.

The evidence existed in two halves that had never been joined. The call-result
type binding (`const alert = formatSpikeAlert(row)` binds `alert` to a TypeRef
whose rawName is the callee) predates all of this work; it simply had nothing to
resolve to when the callee returned an anonymous literal, because an anonymous
literal named nothing. R3-4 gave it a name. Joining them:

    const alert = formatSpikeAlert(row);
    alert.wickRatio   ->   Property:...:formatSpikeAlert.wickRatio

Precise, at ordinary emission confidence, and it works EXACTLY where narrowing
cannot: several producers sharing a field name stop being competitors because
the receiver says which one. Runs before the name fallback and claims its sites,
so a precise answer is never second-guessed by a name match.

Measured on the reporting repo: 1,410 precise edges, and all six fields round 3
verified OUT-OF-SAMPLE go from 0 backend readers to 7, 11, 10, 7, 6 and 14.
Round 3 scored 0/6 on that set; this is 6/6.

The bound is asserted, not just documented: a read off a BARE PARAMETER has no
binding here, because typing it needs the caller's type to flow in — that is
inter-procedural and genuinely larger. Those reads still fall through to name
inference and are still reported when it declines. The fixture has two producers
sharing a field name precisely so the test cannot pass by name matching, and
mutation-checking the owner lookup fails it.

No SCHEMA_BUMP: this is scope resolution, not parse-time capture, so a warm
cache already carries everything it reads. Noted in the ledger because the
reflex on this branch has been to bump, and an unnecessary bump costs every user
a full re-parse.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* Revert "return-shape anchoring" (R3-4/R3-5): it degrades query

Reverts af5eec5c, c764847a and 4f93f32e. The capability was real and measured —
all six fields round 3 verified OUT-OF-SAMPLE went from 0 backend readers to
7/11/10/7/6/14, 0/6 to 6/6, via 1,410 precise return-shape edges. It is reverted
anyway, because it costs more than it buys in its current form.

`cli-limit-e2e` caught it. Bisected to af5eec5c: on the mini-repo fixture,
`query('message')` returned two processes before and NONE after. The mechanism
is not window displacement — that hypothesis was tested with a partition that
kept function-local property keys from taking window slots, and it changed
nothing. Indexing the keys of every returned literal adds many nodes whose names
are ordinary words, which moves the BM25 CORPUS statistics: "message" gets less
discriminating, and `createLogEntry` — the callable that actually carries the
processes — stops ranking at all. A corpus-level effect is not repairable by a
tie-break.

Trading a regression in `query`, one of the core tools, for coverage in
`context` is the wrong trade, and shipping it because the number was good would
be the same mistake this PR spent three rounds removing: a confident answer that
is worse than the honest one.

What the work established, and what re-landing needs:

  - The mechanism is right. Joining the existing call-result type binding to a
    named return shape resolves `alert.wickRatio` by EVIDENCE, which is why it
    succeeds exactly where name inference must refuse.
  - The cost is search dilution, and it needs to be measured on BM25 ranking
    BEFORE the capture lands — not discovered by a downstream e2e test.
  - The likely shape of the fix is keeping return-shape keys out of the text
    search corpus while keeping them in the graph, which needs persisted
    provenance rather than the in-memory flag used here.

Kept: everything through 8972d223, which is verified green.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(search): give the index a notion of DETAIL symbols, and re-land R3-4/R3-5

Reverts the revert. The return-shape work was correct and measured — 1,410
precise edges, and all six fields round 3 verified out-of-sample going 0/6 to
6/6 — and it was dropped for a regression that was really a MISSING LAYER: the
search index had no way to say "this symbol is queryable but is not a concept a
text search should surface on its own".

Indexing the keys of anonymous returned literals adds many nodes whose names are
ordinary words (`message`, `value`, `timestamp`). Without that notion they
compete on equal terms in FTS, push the CALLABLES named after the same concept
past the search's row cap, and `query('message')` returned two processes before
and none after.

The layer, rather than a workaround:

  - `Property.isDetail`, persisted. A Property-only column, which that table
    already precedents with `declaredType`, set where the key is minted.
  - `buildFtsQueryCypher` filters on it for the Property table, BEFORE the row
    cap. That placement is the whole point: rows crowded out never reach the
    caller, so no downstream re-ranking can recover them. Two downstream fixes
    were tried first — a tie-break and a partition of the merge window — and
    recovered nothing, which is what located the real seam.
  - `IS NULL`-tolerant, so an index written before the column existed still
    answers instead of returning nothing.

Verified by the A/B that found the regression: the query's result order is now
byte-identical to the pre-R3-4 baseline —
`proc_0_processrequest, proc_2_errormiddleware, Function:createLogEntry,
Property:LogEntry.message` — with the return-shape coverage retained.

The determinism guard then caught prose in the new DDL comment containing the
token this repo scans for, which would have read as an unordered query. Reworded;
that suite is doing exactly its job.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(processes): let a flow end where the program reaches outward

The item three rounds kept circling. A trace was only emitted at a node with NO
outgoing calls, so a real flow — scan, score, arm, PLACE THE ORDER — is always a
PREFIX of some longer chain that runs on into date helpers, and could never be a
process in its own right. Ranking could not fix that; the flow was never a
candidate to rank.

What blocked it was signal granularity, and the fix is the layer that was
missing rather than a heuristic. GitNexus already knew where the program reaches
outward: the parse phase collects fetch calls and ORM queries carrying
`filePath` + `lineNumber`. Those facts only ever produced FILE-level edges
(`File -[FETCHES]-> Route`), which cannot end a trace — every function in a file
containing one would qualify. Attributing each site to the function whose range
CONTAINS it turns the same facts into the function-level signal the walk needs:
no new extraction, no new relation pair, no schema change. Innermost wins, so a
closure that performs the call is the sink rather than the function spanning it.

Three touch points, and the second is the one that makes or breaks it:

  - the walk emits at a sink AND CONTINUES, so `placeOrder` is an endpoint while
    `placeOrder -> formatDate` still exists separately;
  - subset-removal PRESERVES sink-terminated traces. A sink flow is by
    definition a prefix of the chain that runs past it, so emitting one at the
    walk and deleting it one step later would have been a no-op. Mutation-
    checked: removing this preservation fails all three sink tests, including
    the one asserting the sink is reached at all;
  - selection ranks sink-terminated above leaf-terminated, then by depth.

`processes` now declares `parse` as a dependency. It historically avoided that
on the grounds the dependency was spurious for a progress counter — it is no
longer spurious, so it is declared rather than reached for implicitly, and the
read fails open so a pipeline without that output detects no sinks instead of
losing every process.

Bounded honestly: this fires where fetch/ORM extraction fires. On the reporting
repo it will do nothing until route detection handles hand-rolled dispatchers,
since that codebase routes with `pathname === '/api/...'` on raw node:http and
produces zero Route nodes — a separate gap, and the next one worth closing.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* docs(processes): the comment above the sink ranking still described it as unreachable

R3-6 taught the walk what a sink is, but the block explaining the ranking still
carried the paragraph written when that was out of reach — "a business flow
still cannot be a process in its own right ... fixing that means teaching the
walk what a sink is" — sitting directly above the code that does exactly that.
A reader arriving at `rankedByInterest` would take the limitation as current.

The measured-false fan-in finding stays; it is still true and still worth not
re-deriving. What replaces the stale half is the bound that IS current: sinks
fire where fetch/ORM extraction fires, so a codebase whose outward calls are not
detected as such still sees leaf-terminated traces only.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* feat(routes): read a route that is declared by a comparison, not by a framework

`route_map` on the reporting repo returned

    {"routes": [], "total": 0, "message": "No routes found in this project."}

for a codebase with SEVENTEEN route modules, an `apiRouteTable.js`, and 113
path comparisons. Not a partial answer — a statement about the code, and a
false one. Same confident-empty class as the rest of this branch, except here
it takes out a whole tool.

Four route-discovery paths existed — filesystem convention, single-file
framework route, cross-file framework route, decorator — and every one of them
needs a FRAMEWORK to declare the route. A raw `node:http` server declares it
the only way the language offers:

    if (req.method === 'GET' && pathname === '/api/live/portfolio') { … }

A path, a verb, and a handler. Nothing in the pipeline could read it.

The failure modes are not symmetric, so the rules are weighted accordingly: a
route this misses is a coverage limit, a route it invents is `route_map`
asserting something false. A comparison therefore qualifies only against a
demonstrable request path (`pathname`, `*.pathname`, `req.url`; `path` is
excluded — in Node it is overwhelmingly `node:path` or a file location), and
anything untranslatable is dropped rather than approximated:

  - `pathname.startsWith('/api/')` is a namespace test; minting `/api` would
    claim a route nobody serves;
  - a bare `pathname === '/'` with no verb is more often the static-file
    normalisation branch (`pathname === '/' ? '/index.html' : pathname`) than a
    route — WITH a verb the intent is unambiguous, so that form IS taken;
  - an anchored regex converts only when its body is a literal path plus
    single-segment wildcards, so `/^\/api\/research-runs\/[^/]+$/` becomes
    `/api/research-runs/{param1}` while an optional group or an alternation
    bails.

Three things went in that nobody reported, each found by measuring rather than
by a second report.

`switch (pathname) { case '/api/x': }` is the same dispatch in different
syntax, and waiting for a bug report per shape is how a graph stays permanently
one idiom behind the code it indexes.

The reconciliation had to move up a level. The reporting repo keeps its path
table (`isKnownApiPath`) in one module and its handlers in sixteen others, so a
per-file rule sees each half separately and lists every route twice — once
verb-less with the table as its "handler", once properly. Measured: 22 of the
first 94 routes were that shadow. Only the whole registry can tell them apart,
so the rule lives in the routes phase and touches dispatch-guard routes only —
a framework route without a verb is method-agnostic BY DECLARATION (a Django
function view, a Laravel resource), a fact rather than a weaker observation.

And a path composed from a constant needed folding. One of those seventeen
modules writes every one of its routes as `` `${autoTradeBasePath}/rules` ``,
where the base is an alias of a module-level literal. Refusing that lost the
whole file — and lost it INVISIBLY, since a module with unfoldable paths and a
module with no routes are the same empty answer. Same-file only, literals only,
one alias hop, and it refuses on ambiguity: a name declared twice with
different values is dropped rather than guessed, because a partially-folded
path is a wrong route and a wrong route is the failure this module exists to
avoid.

Wiring is a LanguageProvider hook, not a language check in shared code.
`extractDecoratorRoutes` was already the general "route from this file's own
AST" channel rather than a decorator-only one — express routes have flowed
through it as `decorator-express.get` for a while — so the transport, the
`(method, url)` dedup and the handler-symbol resolution all apply unchanged.
`ExtractedDecoratorRoute.source` carries the one thing that genuinely differs:
a decorator route is DECLARED, a dispatch-guard route is INFERRED. The walk is
gated behind a substring pre-filter so it costs nothing on files that cannot
produce a route, and the gate is sound by construction — every rule reaches a
route only through `isPathExpression`, which needs one of exactly those tokens.

SCHEMA_BUMP 49 -> 51, two entries. Decorator routes are worker output carried
in the parse cache, so a warm cache replays results predating the extractor and
`route_map` stays empty — the symptom this fixes, wearing the mask of "the
extractor does not work". The second bump is the v34 hazard tripping again: a
build stamped 50 had already been used to analyze before folding existed, so
caches stamped 50 carry the unfolded route set. Caught by measuring — the
post-folding run came back suspiciously fast and would have reported the
pre-folding number.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(scope-resolution): ask whether a value def is FUNCTION-LOCAL, not whether it is module-level

The locality filter for value references was written as an ALLOWLIST of
module-scope defs, and that shape cannot express a class member. A value def has
three homes, not two: module level, a function body, and a CLASS body. Java and
C# fields and Python class attributes live in the third, so an allowlist keyed on
"module level" excludes every one of them by construction.

The guard written to make that safe could not fire either. The set arms whenever
a Module scope is FOUND, and Java has module scopes while having no module-level
values at all — so for Java it armed permanently empty, which is exactly the
state the guard exists to distinguish from "there genuinely are none".

Inverting it removes the class. A blocklist of defs positively identified as
function-local fails safe: a Java field, a Python class attribute, or a language
whose scopes could not be inspected is emitted rather than dropped. That also
retires the arming flag — an empty blocklist and an uninspected one mean the same
thing, and both mean "emit". The failure mode moves from "silently deletes an
edge class" to "retains an inert local", which is the right direction for a tool
whose stated principle is that a confident empty answer is the worst outcome.

MEASURED, because the review that prompted this reported it as a P0 deleting
every Java/C#/Python field ACCESSES edge, and that half does not reproduce.
Instrumenting the bridge over `java-write-access` shows ZERO value-ACCESSES
candidates reaching the filter: Java field references resolve to a `Property`
target and `isValueDefinitionLabel` covers only Const/Static/Variable, so the
filter is never consulted there. Pipeline-level edge sets are byte-identical with
the filter forced on and forced off, across four shapes — Java cross-file field
writes, Java cross-file constant reads, Java bare same-class constant reads, and
a Python module-constant/class-attribute mix. The defect is real and latent; the
blast radius is not. Fixed anyway, because the predicate asks the wrong question
and the next change that makes the bridge the sole emitter would ship the
deletion for real.

New `value-ref-locality.test.ts` pins the invariant triple — local dropped,
module-scope kept, class member kept — by TARGET rather than by `reason`. The
per-language suites filter on `rel.reason === 'read'|'write'` while the bridge
stamps `scope-resolution: read|write`, so they are blind to bridge-side change in
both directions. The file states plainly which half gates the mechanism (JS,
mutation-verified) and which gates only the outcome (Java, because the mechanism
is unreachable there), so it cannot be mistaken for a stronger gate than it is.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(docs): restore the agent guidance a generated-block refresh deleted

Commit 8f8261021's message is entirely about cross-language anchor reporting; it
also regenerated the `gitnexus:start` block in AGENTS.md and CLAUDE.md against a
LOCAL, non-PDG index and swept six documentation/config files along with it. The
review caught this and it is correct. Restored:

  - the index stats, which regressed 248612 symbols / 565510 relationships /
    918 flows -> 29969 / 118986 / 762 — my machine's index described as the
    project's;
  - the whole `pdg_query` bullet and the PDG half of the impact bullet, while
    both capabilities remain live in `mcp/tools.ts` and `local-backend.ts`;
  - the "Inline staleness signal" section in the guide skill, content that never
    left `origin/main` and that this branch had no reason to touch;
  - `.mcp.json`, which had moved from `npx -y gitnexus@latest mcp` to a bare
    `gitnexus` — a fresh clone with no global install gets a dead MCP server.

The worst of it is self-inflicted in a specific way worth naming: commit
411cac9b9, four hours earlier on this same branch, ADDED the instruction telling
agents not to read `risk: UNKNOWN` as an all-clear. The refresh deleted it. So
the branch shipped a new UNKNOWN verdict and simultaneously removed the guidance
for reading it — the exact false-safe this PR exists to remove, reintroduced one
layer up in the docs.

Re-applied that guidance, and found the drift is wider than reported. The review
noted the `.claude/` copy contradicting the plugin mirror; in fact the UNKNOWN
block was present in ONE of five shipped distributions. `gitnexus/skills/` (the
npm package), `gitnexus-cursor-integration/`, and `.agents/` were missing it too,
so every non-Claude consumer of this skill had the old table.

`shipped-skills-sync.test.ts` passed 54/54 through all of that. Its byte-identical
check covers only the plan/work/review/lfg family, and the standard skills are
guarded solely by per-skill fragment lists — so a fragment nobody listed is a
fragment nothing protects. Added the UNKNOWN fragments to that list, plus a
`copies.length > 1` assertion so an empty copy list cannot make the loop vacuous.
Verified it fails against the pre-fix tree.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(scope-resolution): require the return-shape producer to RESOLVE, not merely to name-match

Review finding 2, reached independently by three Claude lanes and two Codex
legs, and reproduced here. `emitReturnShapeMemberAccesses` took the receiver's
type binding, then filtered a WHOLE-GRAPH property index with `idNamesMember` —
a textual match on the node id. Any node whose id happened to read
`<producer>.<member>` qualified, in any file and any language, and it emitted at
the 0.9 PRECISE tier where a `minConfidence` floor cannot filter it out. The
sibling unique-name pass was given a per-language restriction for exactly this
hazard; this pass consumed the same shared index with none.

Three guards, catching different shapes:

  - the producer must RESOLVE to a definition (`findCallableBindingInScope` — a
    CALLABLE lookup: the producer is the function whose return shape owns the
    member, and it resolves through finalized import bindings so a producer in
    another file still yields its own file);
  - the member must live in that definition's file;
  - that file must belong to the language being resolved.

The third is not redundant with the second, which is the part worth recording.
A receiver typed by CONSTRUCTION (`const bound = new Loyalty()`) resolves through
the shared class registry, which is polyglot — so the producer resolves into
`Loyalty.java`, its members legitimately live in that same file, and file
equality waves the cross-language edge straight through.

Also fixes the sibling P2: a site where the receiver IS typed to a producer that
owns no such member now claims the site. That branch is the strongest negative
evidence the pipeline can produce, and letting it fall through meant the 0.5 name
fallback answered a question the precise pass had just DISPROVED — measured,
linking a read to an unrelated same-named key in another file.

`polyglot-property-isolation` gains the bound-receiver arm the review asked for,
and it is the right arm: the pre-existing case has an untyped receiver and so
only ever exercised the unique-name pass, while one extra token routes an
identical read through this one. Mutation-verified — restoring the pre-fix
matching makes exactly the new leak assertion fail. The first version of that arm
was silently vacuous (it introduced a JS key of the same name, which destroyed
the fixture's Java-only premise), which is why it now asserts on the TARGET FILE
rather than on the absence of a name.

KNOWN LIMIT, stated rather than papered over: a member-call producer
(`const r = svc.make()`) binds `svc.make`, which resolves to no callable, so this
pass now declines it. Codex B3 raised that converse case and it is real. Fixing
it means typing `svc` and then finding `make` on that type — a larger piece of
work, queued for the follow-up PR. Declining is the correct interim behaviour:
the alternative is matching `make.<member>` by name across the graph, which is
the fabrication this commit removes.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(scope-resolution): resolve the import map by point lookup so the seal cannot empty it

Review finding 4, reproduced end-to-end by two lanes: the same commit and the
same repo produced a DIFFERENT graph depending on `GITNEXUS_DISK_SCOPE_INDEX`.

`buildDirectImportMap` built `scopeToFile` by walking `parsed.scopes`. The
out-of-core seal replaces `emitParsedFiles` with a scope-STRIPPED copy — that is
its documented contract, scopes are reachable only via `scopeTree.getScope`
afterwards — so under the seal the map came out empty, every `directImports`
lookup returned undefined, and tier-2 narrowing died repo-wide.

The reporting is the worse half. The loss surfaced as `ambiguous`, which means
"several candidates and the pass refused to choose". The truth was "the evidence
was discarded one function earlier". A reader acting on that would go looking for
better receiver typing to fix a problem that was not there.

This is the SECOND consumer of `parsed.scopes` on this branch to hit the seal.
The first was hoisted above it. This one is converted to the point lookup
instead, which is the stronger fix: a point lookup survives the seal by contract,
so there is no ordering left for a future edit to get wrong.

The parity assertion that would have caught it now exists. The sealed harness in
`javascript-const-references` already ran the fixture both ways, but every
assertion in it pinned ONE field's readers — which is exactly how a second
instance slipped in, since no assertion happened to cover a narrowed name. It now
also compares the WHOLE ACCESSES edge set between the two runs, as a sorted diff
so a failure names the edges that moved, with a non-empty guard so two empty sets
cannot compare equal and assert nothing. Mutation-verified: forcing the map empty
fails it.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(scope-resolution): bind a producer's own returned key to itself, and stop claiming uniqueness for a ranked answer

Review finding 3, accepting the two defects it demonstrates and declining the
remedy it proposes. Both halves are mutation-verified.

1. A SITE INSIDE ITS OWN RETURN SHAPE NOW BINDS TO ITS OWN KEY.

   `export function buildB(row) { return { tickIntervalMs: row.b } }` writes the
   key that IS `buildB.tickIntervalMs`. Ranking declared anchors above return
   shapes is correct for a READ through a receiver, but applied to this site it
   handed the write to a same-named module const that `buildB` never touches —
   a wrong edge — while the node the key actually defines was left with no
   writer at all. Both halves wrong from one rule applied to the wrong shape.

   Checked before every other rule, because it is evidence rather than ranking:
   the owner qualifier on the candidate id and the enclosing callable are the
   same symbol. Nothing outranks that.

2. THE TIER NO LONGER LIES.

   `workspace-unique` is a claim that exactly one node in the workspace carries
   the name — a fact about the graph, and the label a reader trusts most. An
   answer reached by FILTERING (tests down-ranked, return shapes down-ranked)
   is a weaker claim, and it was reported under the same label. The edge is
   unchanged; what it is allowed to say about itself is not. `narrowed` now
   counts these correctly too, since it keys off the tier.

WHAT I AM NOT DOING, and why. The review proposes dropping the same-file and
imported-file tiers "and keeping only genuine workspace-uniqueness". That would
revert the measured R2 result taking backend readers of `exitMinAtrMult` from
0 to 24. Workspace uniqueness was already measured too strict on that repo: the
field carries 26 Property definitions — 16 in one-off scripts, 7 in the
frontend, one in a test, and exactly one in the backend that reads it. Strict
uniqueness declines all 24.

The alternative suggestion — require the receiver to bind to the owning object —
has the same effect by another route: the population this pass exists for is the
untyped option bag, whose receiver binds to nothing. Requiring a binding turns
the pass off for its own use case. So the two demonstrated defects are fixed and
the capability around them is kept, at half confidence, naming its inference in
the reason string, and honoured only where `fieldFallbackOnMethodLookup` allows.

The R3-5 precision test needed rescoping rather than relaxing: it asserted that
EVERY edge to the contested field is a precise return-shape edge, which the
producer's own (correct, name-tier) write now violates. It asserts the reader
edges are precise and the producer's write binds to its own key — two different
claims reached two different ways, which is what the code now models.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(bench): re-baseline the JS/TS scope-capture fingerprints for this branch's capture additions

The `Cross-language scope-capture fingerprint + scaling guards` CI step was
failing on TypeScript and JavaScript, and it had been failing for the whole PR —
the branch changed both SCOPE queries without ever updating the guard's
baseline. It only surfaced now because a merge conflict had prevented CI from
running at all, so nothing reported it.

Re-baselined per the file's own instruction ("re-baseline intentionally on a
legitimate capture change"), and verified first rather than rubber-stamped. The
capture-name sets in both scope queries, diffed against `origin/main`:

  TypeScript  + @reference.read.identifier      (A2, bare-identifier reads)
              + @reference.type                 (R2-2, type references)
  JavaScript  + @reference.read.identifier      (A2)
              + @reference.read.destructured    (R2-1c)
              + @reference.write.property-key   (R2-1b)

Nothing removed on either side. A pure superset is the check that no EXISTING
capture moved — which is the failure mode a fingerprint guard exists to catch,
and the reason to look before regenerating.

Consistent everywhere else too: `capture_groups_small`/`_large` are unchanged
(4503/14403) because those measure the SYNTHETIC scaling source this branch does
not touch, so only the fixture-corpus number moves — 2097 -> 2338 across 21 new
lang-resolution fixtures, 146 -> 151 files. Scaling stayed linear and inside
budget (typescript 1.116, javascript 1.010, both < 1.5), so the added rules cost
no super-linear time. Prior and new hashes are recorded in the baseline note, as
every previous entry in that file does.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(bench): re-baseline the receiver-resolution drop guard for the new WRITE site kind

Second of the two bench guards that had been failing for the whole PR without
anyone seeing it — CI could not run while the branch was conflicted, so both
went unreported until the merge cleared.

The drift is a new site KIND, not a movement in an existing one:

    totalDropsAllKinds  129 -> 140
    bySiteKind          {call: 102, read: 27}
                     -> {call: 102, read: 27, write: 11}

`call` and `read` are byte-identical, which is the check that matters. This
branch added write-site captures the corpus never had — `@reference.write.
property-key` (R2-1b record construction) and the destructured-read rules — so
write sites reach receiver resolution for the first time, and 11 of them have a
receiver that does not resolve. A drop is the honest outcome for those; the
alternative is the name-inferred guess this series spent three rounds bounding.

Verified it is NOT caused by this session's review fixes before re-baselining:
removing the `memberNotOnShape` site-claim added in 69047086 and re-running gives
the identical 129 -> 140 / write: 11 drift, so the movement predates today and
belongs to the capture work, exactly as the arithmetic above says.

The sibling `scope-emission` guard still PASSES untouched, and the fingerprint
guard passes after 20a937f4 — so all three arms of the benchmarks job are green
locally.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(routes): track boolean polarity in dispatch guards, so a negated condition cannot invent a route

Reproduced exactly as reported. `dispatch-guard.ts` refuses to inherit a verb
from an `if` whose `else` branch holds the comparison — the module's own doc
comment explains why: that branch runs precisely when the condition did NOT
hold, so attributing it is backwards. `!` is the same fact written as an
operator, and it was not handled. A stated invariant with half an
implementation, which is worse than an absent one, because the comment reads as
though it were covered.

Measured against the real extractor before fixing:

    if (!(pathname === '/api/admin'))                  ->  '' /api/admin   INVENTED
    if (!(req.method === 'GET') && pathname === '/x')  ->  GET /x          INVERTED
    if (!(req.method === 'POST' && pathname === '/w')) ->  POST /w         BOTH

And the review is right that this is not additive-only. Driven through the real
pipeline with a policy module that serves nothing plus a one-line route table,
the invented `GET /api/report` collected into `verbedUrls` and
`reconcileDispatchGuardRoutes` then EVICTED the true verb-less route for that
path. A false route deleted a real one. After the fix that repo yields exactly
one route, verb-less, path intact.

Parity, not presence: `!!x` is `x`, so counting negations and testing the parity
is the only rule that keeps a doubly-negated guard working. A negated VERB drops
to verb-less rather than dropping the route — `!(method === 'GET')` means every
method except GET, which no single value expresses, while the path evidence is
untouched. Applies to the regex arm too; `!/^\/api\/x$/.test(pathname)` had the
identical hole.

Deliberately NOT keeping the `statement_block` break from the suggested patch.
It is unreachable — the `!` in `if (!cond) { … }` lives in the condition, a
SIBLING of the block, never an ancestor of anything inside it, and the only
shape that puts a `!` above a block is an IIFE, which the function-boundary stop
catches first. Unreachable in the UNSAFE direction, too: breaking early
under-counts negations, and an under-count reads a negated guard as positive and
invents the route. Verified by mutation — with the break present, deleting it
fails nothing; the other three guards each fail a test when removed.

Six new cases, all previously absent (`grep -c '!(' ` over both test files was 0,
and the only negation covered was `!==`, the form that already worked).

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* test(bench): re-baseline the emit-persistence byte-identity fingerprint for the isDetail column

The third bench guard this branch left red, and the one the earlier
rebaseline pass missed: the `benchmarks (GITNEXUS_BENCH)` job has never
succeeded once in eleven attempts, and since step 11 aborts the job, the
two steps after it — the streaming PDG-emit guard and the cross-language
pipeline benchmarks — have never executed at all.

    [emit-persistence --check] FAIL: byte-identity fingerprint drift
      (got 4ee15e74…, expected 69e9182a…)

Cause is this branch's own `isDetail` BOOLEAN on the Property table
(PROPERTY_SCHEMA), which `streamAllCSVsToDisk` writes as one more header
field and one more cell per Property row.

Verified header-only rather than regenerated on faith. Dumping every CSV
the bench emits on both `origin/main` and this branch and diffing them
per file (name, byte length, sha256): the file set is identical at 35
CSVs, 34 of the 35 are byte-identical, and the sole difference is
property.csv growing 68 -> 77 bytes as the header gains `,isDetail`. The
synthetic graph mints no Property nodes, so not one data row moved —
which is the thing this fingerprint exists to catch. Both timing gates
were green throughout (scaling_ratio 0.783 against a 1.8 budget,
elapsed_ms_large 229ms against the 1000ms backstop), so no throughput
claim is being rebaselined away.

Justification recorded in a `_rebaselined_<reason>` key, the convention
bench/scope-capture/baselines.json already sets, and the note now says so
explicitly so the next regeneration records its reasoning too.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01BCptYZWRgnnJ821rzebQyj

* perf(processes): build each trace key once, not once per comparison

`deduplicateTraces` held its `join('->')` inside the `some()` callback, so
every already-kept trace had its key rebuilt from scratch against every
candidate: O(T*U) joins of O(depth * id-length) characters. The
allocation, not the substring scan, is what the pass spends its time on.

Nothing about breadth-first search made that safe. It only hid the cost by
keeping traces short — measured on this repo the walk averaged 4.3 steps
before D1 and 9.4 after, which roughly doubles both the number of
surviving traces and the length of every key, so the same quadratic that
was affordable under BFS is about six times the work under DFS. That is
the whole of the slowdown D1 was carrying; the depth-first walk itself is
cheaper than the queue it replaced (`pop()` against an O(frontier)
`shift()`), and its frontier is bounded by depth rather than by breadth.

Hoisting the join into a `uniqueKeys` array removes the multiplication.
Measured back to back on one host, 5 reps, 25k callables, production sink
path (main -> this branch before -> this branch after):

    deep_chain      876.8ms -> 1233.1ms -> 101.9ms
    mixed_cycles    731.4ms -> 1130.6ms -> 132.8ms
    shallow_wide    572.5ms ->  531.8ms ->  49.6ms

and on the real gitnexus/src corpus (11,490 symbols) process detection
goes 204ms -> 89ms against main, having been slower than main before.

Output is unchanged, which is the property that matters here: swapping the
file back and forth and diffing every non-timing field across all sixteen
shape x scale x sink-variant configurations gives no difference, and the
real corpus returns the same 936 processes / 4,648 steps either way. Sink
keys are pushed alongside the traces they belong to, so the comparison set
is the same set it always was.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01BCptYZWRgnnJ821rzebQyj

* fix(processes): type the parse-output read as ParseOutput

The R3-6 sink read declared its own structural shape for the parse output
instead of naming `ParseOutput`, which made it the only one of the five
parse consumers in the repo not bound to the real type — cross-file.ts,
orm.ts, routes.ts and tools.ts all pass the type argument.

`getPhaseOutput` is a raw `as T` cast, so a local shape checks nothing at
runtime and only severs the compile-time link: renaming `allFetchCalls` on
`ParseOutput` would still compile here and silently detect zero sinks
forever. Verified with a real `tsc --noEmit --strict` run over exactly that
rename — the typed consumers error, this one did not. The runtime `.filter`
stays, since it is the only thing actually guarding the cast.

Also brings the phase docblock back in line with the deps array, which was
missing `structure` (pre-existing) and `parse` (added by this branch), and
records the two parse fields the phase now reads.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01BCptYZWRgnnJ821rzebQyj

---------

Co-authored-by: Claude Opus 5 (1M context) <noreply@anthropic.com>
Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
2026-08-08 09:58:14 +01:00
Gergő Magyar
e69d3c49c4
fix(analyze): gate FTS-indexed DML before the incremental writeback (#2841) (#2854)
* fix(lbug): never report a drop that could not happen, and gate FTS-indexed DML

`CALL DROP_FTS_INDEX` is itself an FTS-extension function, so with the
extension unloaded it fails with `Catalog exception: function DROP_FTS_INDEX
is not defined`. `isBenignDropFtsIndexError` classifies that as "nothing to
drop" — correct when the index does not exist, wrong when it does: the drop
silently no-ops and the next write to that table dies at bind time with an
engine message that never mentions FTS (#2841).

The classifier stays pure (a message cannot tell you whether an index is
live). Instead `dropFTSIndex` settles liveness with a catalog read on the
ERROR path only and raises an FTS-named, remedy-bearing error when the index
is present but undroppable.

Adds `ensureFtsRowDmlSafe`, the FTS twin of `ensureEmbeddingRowDmlSafe`
(#2623): catalog first, load FTS with the analyze policy only when an index
actually gates DML. LadybugDB refuses that DML at BIND time — a DETACH DELETE
matching zero rows fails exactly as hard as one matching thousands — and the
indexes cannot be cleared in place, so a verdict is the only useful answer.

Both gates now share one `SHOW_INDEXES` read via `readIndexCatalogRows`, so
adding the FTS check costs no extra catalog round-trip.

Refs #2841

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01CxokkpfssUCxvBwRZMtRCB

* fix(analyze): escalate instead of crashing when FTS blocks incremental DML

The incremental writeback decided its write plan without ever asking whether
row-level DML was legal. On a DB carrying FTS indexes with an unloadable FTS
extension, `deleteNodesForFiles` then died mid-writeback:

    Binder exception: Trying to delete from an index on table File but its
    extension is not loaded.

with no mention of FTS anywhere in the run — the only install-capable load
happened in Phase 3, long after the writes (#2841).

The incremental branch now reads the index catalog once and derives both
extension verdicts before any DML. When FTS (or VECTOR) blocks in-place
writes, the run falls through to the existing wipe-and-bulk-COPY escalation
— the same answer #2623 gave for VECTOR, and the only one available, since
the indexes cannot be dropped without the extension.

Every blocked extension is named in the reason log, not just the first one
checked: a DB can carry both a vector index and FTS indexes, and reporting
half the cause is how this failure stayed mis-diagnosed.

Refs #2841

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01CxokkpfssUCxvBwRZMtRCB

* test(analyze): cover the FTS DML gate, both-blocked escalation, and the drop guard

New `incremental-index-extension-dml-gate.test.ts` drives the real
`runFullAnalysis` against a real mini-repo and a real LadybugDB:

  - a DB carrying FTS indexes with FTS made unloadable escalates to a full DB
    write, names FTS in the log, ends with zero FTS indexes, and still has the
    newly committed content in the graph (pre-fix: Binder exception, exit 1);
  - FTS available keeps the surgical plan and the indexes;
  - a DB that never carried FTS indexes is not escalated (the catalog-first
    check must not tax FTS-less machines);
  - FTS and VECTOR both blocked produce ONE escalation naming both.

`drop-fts-index-error-classification.test.ts` gains the two `dropFTSIndex`
cases the #2841 guard turns on: live index + unloaded extension rejects with
an FTS-named error, absent index still resolves. The existing classifier
assertions are unchanged — it stays pure.

The CLI e2e reproduces the reporter's exact journey (analyze with the
extension, remove it, touch a file, analyze again) and asserts exit 0 plus an
FTS-named reason. It skips visibly when the seeded extension cannot load on
the host, so it can never report a false red about the fix.

Mutation-verified: reverting the run-analyze gate fails the first scenario;
reverting the dropFTSIndex guard fails the live-index case.

Refs #2841

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01CxokkpfssUCxvBwRZMtRCB

* fix(lbug): make every catalog-gated path fail closed, and classify the drop remedy

Review findings on #2854 (two-engine, 17 lanes).

H3 — `ftsIndexExistsInCatalog` returned `false` when the catalog could not be
read, i.e. "index absent", so `dropFTSIndex` swallowed the error and the caller
proceeded as if the index were gone. That is the #2841 symptom the guard exists
to make loud, and it contradicted the contract `readIndexCatalogRows` states two
functions above. It now fails closed.

§6.A — `ensureFtsRowDmlSafe` keyed on `index_type === 'FTS'`, which answers
`undefined === 'FTS'` → false → *no gate* for a row whose shape cannot be read:
fail-open, in the gate whose only job is preventing an unsafe write, while the
VECTOR twin fails closed on the same input. Now only a positively-identified
non-FTS index is waved through. Deliberately NOT the twin's `!== 'HASH'`: that
is safe there only because it is scoped to the embedding table first, and this
gate is table-agnostic — `!== 'HASH'` would let the HNSW index gate FTS DML.

§5.A — `undefined` was overloaded: "caller passed nothing" and "caller tried and
could not prove anything" shared one value, so a failed shared read silently
became three reads and the two gates could decide from different snapshots. The
failed snapshot is now representable (`INDEX_CATALOG_UNREADABLE`), leaving one
unambiguous `??` in `resolveGateRows`.

§5.B — both gates regained the unconditional null-connection precondition the
refactor moved into the reader.

§5.G — the throw's remedy now routes through `diagnoseExtensionLoad`, like
`--repair-fts` and `ftsDegradedWarning`, so a missing runtime dependency is not
told to reinstall. The message stays path-free (#2374/#2375).

The dead positional row fallbacks are kept and marked `LADYBUGDB-CONTRACT`:
removing them would turn a proven-inert hedge into a fail-open gate if a future
engine returns unnamed tuples.

Refs #2841

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01CxokkpfssUCxvBwRZMtRCB

* fix(analyze): never undo an explicit wipe, stage extension-forced rebuilds, report honestly

Review findings on #2854 (two-engine, 17 lanes).

H1 (P1, both engines) — `analyze --drop-embeddings` was silently reverted. The
`--drop-embeddings` → `force` conversion sits inside the `embeddingCheckpoint`
branch, so without a checkpoint the run stays incremental and reaches the gate;
the flag then *deliberately* leaves `cachedEmbeddings` empty, which is exactly
the rescue's trigger, so every row the operator asked to destroy was read back
and restored, exit 0. Widening the rescue from `!embeddingRowDmlSafe` to
`extensionForcedRebuild` moved that latent bug onto the dominant path, because
every analyzed DB carries FTS indexes. Guarded on the flag itself — NOT on
`shouldLoadCache`, which is false in the meta-under-reports case the rescue
exists for and would have deleted the safeguard while fixing the wipe. The
`--drop-embeddings --embeddings` variant is covered by the same guard.

H2 — an extension-forced escalation wiped the LIVE index in place: `buildPath`
was frozen ~440 lines earlier while the run was still classified incremental,
so an interrupt or ENOSPC left no complete index, where main failed at bind time
with it intact. Extension-forced rebuilds now build into a staging file and
publish via the existing atomic swap; size-forced ones stay in place, since that
trigger is the repo's own churn rather than a machine condition.

H5 — the escalation log asserted a vector index "exists" and that the store
"carries FTS indexes" in exactly the case the catalog read proved nothing, while
the only truthful signal went to stderr rather than the IPC log. It now emits a
distinct unreadable-catalog cause, and "this index carries" (which pointed at
the vector index just named) reads "the graph store carries".

§5.D — the write-set cause was dropped whenever an extension cause co-occurred;
causes are appended now, not selected between.

§5.C — after an FTS-forced rebuild stamped lastCommit, a plain rerun on the same
commit hit the alreadyUpToDate fast path before Phase 3, so the CLI's "install
… then rerun" advice could never restore FTS. The fast path is now bypassed when
meta records FTS unavailable and the extension can load again, keyed on the
persisted capabilities stamp rather than new state.

§5.F (skip the escalation for a zero-change commit) is deliberately NOT
implemented: `deleteSpringAutoConfigurationSyntheticClasses` and
`deleteSpringAopEvidenceNodes` run unconditionally on the surgical branch and
bind against FTS-indexed `Class`/`CodeElement`, and a zero-row DETACH DELETE
fails at bind time exactly as hard as a large one — so the skip would restore
the original crash.

Refs #2841

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01CxokkpfssUCxvBwRZMtRCB

* perf(search): read the index catalog once per drop sweep, and state the real contract

Review findings on #2854.

H4 — on a machine where FTS cannot load and the DB carries no FTS index, the
gate correctly returned early without loading the extension, but the surgical
path still ran the full 20-entry drop sweep: every `CALL DROP_FTS_INDEX` raised
"function DROP_FTS_INDEX is not defined", and the new liveness guard then fired
a fresh catalog read per table — 20 reads every run, forever, for exactly the
offline/load-only population, contradicting the "healthy path costs nothing"
claim shipped with the guard. The sweep now reads the catalog once and skips
entirely when no FTS-typed index exists. An unreadable catalog runs the sweep,
so an unprovable catalog never skips real work.

H8 — the docstring still promised `dropFTSIndex` "tolerates" an unloadable
extension. Post-#2854 a live index plus an unloadable extension throws, and
safety rests on caller ordering discipline rather than the type system — which
is what would have talked the next caller out of that ordering.

GUARDRAILS — the "switching to a full DB write" sign described exactly one
trigger (write set >~50%). Since #2623 and #2841 an unloadable extension
escalates regardless of write-set size; documented with its recovery steps.

Refs #2841

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01CxokkpfssUCxvBwRZMtRCB

* test(analyze): cover the wipe guard, the staged rebuild, and the fail-closed branches

Review findings on #2854.

H1/H2 mutation-verified: removing `!options.dropEmbeddings` fails the new
drop-embeddings case ("expected true to be false"); disabling the staging
upgrade fails the staging case ("expected 0 to be greater than 0"), so both
assert behaviour rather than describe it.

Gate suite (7 cases): `--drop-embeddings` under an FTS-forced escalation ends at
zero embedding rows and logs no "Preserving"; the escalation is one-shot — a
third run on a healthy host returns to surgery and rebuilds every FTS index; an
extension-forced rebuild is observed building into `lbug.staging.*` and leaves
none behind; the rescue complement still preserves un-stamped rows when no wipe
was requested; the never-built case now asserts the commit reached the graph.

H6 — the both-blocked case hard-asserted `createVectorIndex()` while the suite
probed FTS only, so it went red on any FTS-yes/VECTOR-no host. VECTOR is probed
now and gates only that case, with a GITNEXUS_REQUIRE_VECTOR hard-fail.

H7 — the fail-closed branches had no coverage although the VECTOR twin's test
and interception technique were ready to copy: `ensureFtsRowDmlSafe` under an
unreadable catalog now proves it routes to the load, and `dropFTSIndex` proves
it rejects rather than silently tolerating. Plus a redaction case that forces a
real path-bearing load failure — under policy `never` the assertion would have
been vacuous, since that reason carries no path.

§5.E/§6.B — the suite is registered in the cross-platform matrix (its sibling
was; it wasn't, and GITNEXUS_REQUIRE_VECTOR is set only on that job) and moved
into the sequential lbug-db project per TESTING.md:68, verified not to drop it
from the sharded ubuntu job. A Windows shard weight is added as a labelled
estimate — the 8s floor would skew the split it exists to protect.

Refs #2841

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01CxokkpfssUCxvBwRZMtRCB

* refactor(analyze): make the FTS gate's fast path cheap, its claims provable, and its remedies classified

Cleanup review of the #2841 work (four parallel angles: reuse, simplification,
efficiency, altitude). Behaviour-preserving except where the previous behaviour
was wrong.

Correctness the review caught:

- The fast-path probe keyed on `capabilities.fts.status === 'unavailable'`,
  which collapses "extension unavailable" and "index build failed". A
  deterministic build failure (an un-tokenizable row, #2544) therefore bypassed
  `alreadyUpToDate` on EVERY subsequent run, re-analyzed the whole repo, failed
  the same way, and restamped — a permanent loop where the run used to be one
  `stat`. Phase 3 already computes the discriminator; it is now persisted as
  `fts.skipReason` and the probe only runs for `extension-unavailable`. Metas
  written before this carry no field and keep today's behaviour.

- `dropSearchFTSIndexes` skipped its sweep when no row read `index_type ===
  'FTS'`, while `ensureFtsRowDmlSafe` treats an unreadable type as "might be
  FTS". Opposite polarity, under a comment claiming they matched: a row-shape
  change would let the gate wave the surgical plan through while the sweep
  dropped nothing, putting DELETEs back on tables carrying live FTS indexes —
  #2589 again. The sweep now decides per configured index on identity, which
  is also strictly more precise. Its old justification (leftover indexes under
  other names) was unreachable — the loop only ever drops configured entries.

- `dropFTSIndex` threw "FTS index X on table Y exists" on the one path where
  the catalog could not be read — a fabricated claim, on a DB the same run had
  just shown carries no FTS index. Presence is now `present | absent |
  unverifiable` and the message says which.

- The remedy was hand-written for three of the four load-failure classes,
  discarding `missingFileRemedy`/`corruptFileRemedy`, so a corrupt extension
  file was told to retry an install — the misdirection #2383 fixed. Both the
  drop error and the escalation log now use the classified remedy.

Cost, measured on a 391 MB index (cold open ~1 s, SHOW_INDEXES ~4 ms):

- The probe opened the live index WRITABLE on the millisecond fast path,
  dragging in schema DDL, the cross-process write lock, sidecar reclaim and a
  CHECKPOINT on close. It is read-only now. That also closes an install trap:
  `doInitLbug`'s pre-load resolves the env policy on the writable branch, so an
  operator following our own `GITNEXUS_LBUG_EXTENSION_INSTALL=auto` advice paid
  a forked 15 s installer on every up-to-date run (memoized per process; the CLI
  is a fresh process each time). The read-only branch pins `load-only`.

- A failed staged rebuild orphaned a full index-sized copy until the next lock
  sweep; the failure path now reclaims it.

- The sweep re-read a catalog the run already held, defeating the invariant the
  snapshot type exists to enforce.

Structure: row-shape accessors have one home, so the LADYBUGDB-CONTRACT grep
claim is true by construction; staging now applies to both escalation causes,
since recoverability is a property of the wipe-then-COPY plan, not of the
trigger; `getExtensionCapability`/`getFtsCapability` replace hand-spelled
lookups where the seam allows.

Two lookups in run-analyze.ts deliberately keep the exported
`getExtensionCapabilities()` form: the #2383 tests stub that export, and an ESM
module mock does not intercept a helper's internal call — routing through it
silently degraded the classified remedy to generic text. Recorded in-comment.

Not taken, deliberately: extracting the escalation message and replacing the
snapshot protocol with a connection-scoped catalog memo (both sound, both
restructure code this PR just stabilised — they belong in their own change);
an extension registry (premature at two instances, and the FTS/VECTOR polarity
difference is exactly what it would have to parameterize back out).

Refs #2841

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01CxokkpfssUCxvBwRZMtRCB

* test(analyze): pin both sides of the degraded-FTS fast-path bypass

`healDegradedFts` (§5.C) had zero coverage — three separate review angles
flagged it, and the cleanup pass then found it sat one conjunct away from a
permanent full-re-analyze loop. Both sides are pinned now:

- it re-analyzes past `alreadyUpToDate` when the stored meta says FTS is
  degraded and the extension loads again: run 1 analyzes with loads blocked
  (asserting the precondition — `status: 'unavailable'`, `skipReason:
  'extension-unavailable'` — rather than assuming it), then a same-commit
  clean-tree rerun rebuilds every FTS index without a file changing;
- it stands down when the degradation was a BUILD failure: the stored
  `skipReason` is rewritten to 'build-failed' and the rerun must take the fast
  path, because that rebuild would fail identically on every run forever.

The build-failed state is reached by rewriting the stamped discriminator, not
by provoking a real tokenizer failure: a genuine one needs a stored row the
native tokenizer rejects (#2544/#2546), which is neither portable across the CI
matrix nor deterministic, and §5.C reads only that field.

Also folds the first escalation case into the one-shot case. The claim that it
was fully subsumed did not hold on audit: `logs` containing 'FTS' was unique as
expected, but so was the duplicate-File-node row count — every other reader goes
through a Map keyed by path, which collapses a stale twin an appending rebuild
would leave. Both assertions moved rather than one being dropped.

Net suite runtime goes UP (two cycles removed, four added), against the
cross-platform-matrix argument that motivated the dedup — recorded here because
the shard weight is an estimate pending a real Windows measurement.

Refs #2841

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01CxokkpfssUCxvBwRZMtRCB

* test(search): keep the whole-module adapter mock in step with the row accessors

The cleanup pass moved the LadybugDB row-shape reads behind named accessors so
the column contract has one home. `fts-indexes.test.ts` mocks the entire adapter
module with a hand-written factory, which still exposed only the three exports
the file imported before — so `verifySearchFTSIndexes` failed with "No
`indexRowName` export is defined on the mock" while production was fine.

The added accessors mirror the real implementations rather than returning
stubs. A stub would have read `undefined` out of every catalog row and let the
suite pass for the wrong reason — the failure mode a whole-module mock invites
whenever the module under test grows an import.

Refs #2841

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01CxokkpfssUCxvBwRZMtRCB

* revert(analyze): drop the degraded-FTS auto-heal, fix the advice it existed to justify

§5.C's complaint was that the CLI tells users to "install the extension … then
rerun" when a rerun lands on the up-to-date fast path and rebuilds nothing. The
answer shipped for it was a probe that bypasses that fast path. Four independent
problems later, the sentence is cheaper to fix than to make true:

- it could not tell "extension was missing" from "index build failed" without a
  stamped discriminator, so a deterministic build failure (#2544/#2546)
  re-analyzed the entire repo on every invocation, forever, where the run used
  to be one `stat`;
- it opened the live index on the millisecond fast path — writable at first,
  dragging in DDL, the cross-process lock and a CHECKPOINT (~1 s on a 391 MB
  index), and even read-only it is a full open;
- `doInitLbug`'s pre-load resolves the env policy, so an operator following our
  own `GITNEXUS_LBUG_EXTENSION_INSTALL=auto` advice paid a forked 15 s installer
  per up-to-date run;
- and it turns the fast path into a full re-analysis whenever an index authored
  where FTS was unavailable is later read where it loads — a legitimate, common
  state, and the invariant `analyzer-identity-cli.test.ts` pins.

So: no probe. The degraded-search warning now points at `gitnexus analyze
--repair-fts`, which rebuilds the search indexes without re-parsing the repo,
instead of "then rerun". One line, no new failure modes, and it is what the
issue actually asked for.

`capabilities.fts.skipReason` stays in the meta stamp: it costs three lines,
makes the two degradation causes distinguishable for support, and is what any
future correct answer here would key on.

Also gates the H2 staging assertion on the production predicate. It asserted
staging unconditionally while the upgrade requires `posixSwap || windowsSwapOk`,
and `windowsSwapOk` is opt-in (#2614) — so it failed on the Windows matrix for a
reason unrelated to #2841. Registering this suite cross-platform is what exposed
it; the assertion now mirrors the condition it is testing.

Refs #2841

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01CxokkpfssUCxvBwRZMtRCB

* fix(analyze): never stage around a damaged index — escalate in place when the catalog is unreadable

CI caught this on ubuntu and macOS: `analyze-wal-checkpoint-failure` stopped
failing, which is worse than it sounds.

That test plants a directory at `.gitnexus/lbug.wal.checkpoint` so the
auto-checkpoint's rename target is blocked, and asserts analyze exits non-zero
with the `--wal-checkpoint-threshold` hint. But LadybugDB cannot open that path
at all, so `CALL SHOW_INDEXES()` now fails with `IO exception: … Is a
directory`. The catalog read returns UNREADABLE, both DML gates correctly fail
closed, both extension loads fail with the same IO error, and the run escalates
— and since the escalation stages, it built a fresh index at
`lbug.staging.<uuid>`, swapped it in, and exited 0.

The blocked path was never touched. The run "succeeded" while the damage sat
untouched on disk, waiting to break the next in-place writeback.

So the staging upgrade is now conditional on the catalog having been READ.
Staging exists to protect a healthy live index from a machine-level cause (an
extension that will not load); it must not be used to route around a damaged
one. When we are escalating out of ignorance, build in place so the underlying
IO fault lands on the failure path where the operator gets a diagnosis.

Verified against the real CLI, not just the suite: with a directory planted at
the checkpoint path, analyze now exits 1 and prints
`gitnexus analyze --wal-checkpoint-threshold 67108864`. The healthy
extension-forced case still stages (gate suite 6/6).

Refs #2841

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01CxokkpfssUCxvBwRZMtRCB

---------

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Claude Opus 5 (1M context) <noreply@anthropic.com>
2026-08-07 09:44:44 +01:00
drdave
021ac30376
feat(cli): add a bunx lane so bun-only machines can run gitnexus (#2765)
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* feat(cli): add a bunx lane to the runner ladder

The ladder assumed a Node toolchain: global gitnexus, then pnpm dlx or
npx in some order, with npx as the last resort. On a bun-only machine
npm, npx and pnpm are all absent, so every rung fell through to npx and
both the emitted hint and the generated .gitnexus/run.cjs produced a
command the machine could not run at all.

Add bun as a fourth mode, invoked as an install-free bunx one-shot, on
two rungs:

  - npm 11+ with no pnpm to fall back on — bunx dodges the same arborist
    install crash the pnpm rung exists for (#1939);
  - npm and pnpm both absent — previously the dead end described above.

Every pre-existing outcome is preserved: pnpm still wins on npm 11+, npx
still wins on npm < 11, and pnpm still wins over bunx when npm is absent.
Regression tests pin each of those. The bun PATH probe is lazy, so a
machine with a Node toolchain pays no extra scan and the stale-index hook
budget is unchanged.

bunx takes no allow-build equivalent: bun's --trust is a bun add/install
flag that writes trustedDependencies into a project package.json, which a
one-shot has none of, so the argv stays flag-free.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_016R9psS9gJ73MRyquoBoPKg

* fix(lbug): restore the prebuilt native binary when install scripts were skipped

Without this the new bunx lane resolves to a command that still fails:
bun skips lifecycle scripts for a bunx fetch, so @ladybugdb/core's
install script never copies lbugjs.node up from its per-platform
sub-package and every native command dead-ends on 'LadybugDB native
binary (lbugjs.node) is missing'.

The existing guidance cannot rescue that case. It offers pnpm
--allow-build, a global install, or adding trustedDependencies to a
project package.json — bunx has no project package.json to add to, no
per-invocation opt-in, and re-extracts the package on every run, so an
out-of-band repair is wiped before the next invocation. In-process
recovery is the only thing that can work.

Recovery is cheap because nothing is actually absent: the binary is
already on disk in @ladybugdb/core-<platform>-<arch>, and the skipped
script only copied it up. Redo that copy (prebuilt only — never a source
build, never a network fetch) before reporting failure. Best-effort by
construction: read-only node_modules, an absent sub-package or an
unsupported platform all fall through to the existing diagnostics
unchanged, which a test pins.

Also covers pnpm dlx without --allow-build and npm --ignore-scripts.

Declare trustedDependencies so a plain `bun install` in this repo
produces a working native binary too — the remedy the error message
already prescribes.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_016R9psS9gJ73MRyquoBoPKg

* fix(ai-context): name every install-free runner in the generated bootstrap note

The emitted gitnexus:start block told a reader with no runner yet to run
`npx gitnexus analyze`, falling back to a global npm install. Both name
binaries a bun-only machine does not have, so the generated AGENTS.md and
CLAUDE.md offered it no reachable bootstrap path.

List npx, bunx and pnpm dlx instead of resolving one. The block is
committed, so emitting the command this machine happens to resolve would
make two contributors on different package managers rewrite it at each
other on every analyze — the per-machine churn #1706 removed. Naming all
three keeps the note machine-independent and correct everywhere.

Regenerates this repo's own committed block to match.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_016R9psS9gJ73MRyquoBoPKg

* fix(cli): address PR #2765 review — bunx liveness, restore diagnostics, docs

Addresses all five review comments on #2765.

P1 — `hasBun()` was a PATH-existence check only, so a present-but-broken
`bunx` shim (partial uninstall, failed `bun upgrade`) was selected with no
functional validation. Because selecting `bun` also suppresses the npm-11
npx-crash warning, the result was a silent dead end: no diagnostic, and a
`bunx gitnexus@latest analyze` command that only fails at execution time.
Add `probeRuns()` — a real `bunx --version` liveness probe, gated behind the
cheap spawn-free PATH scan so machines with npm/pnpm still pay nothing. It
ignores the output on purpose (a banner or unparseable version still counts
as alive); only a spawn failure, non-zero exit, or timeout rejects. Injectable
via a new `bunRuns` dep so the mode tests stay host-independent.

P2 — the `gitnexus-cli` skill (and both shipped mirrors) still described the
pre-bunx ladder, stranding exactly this PR's audience: a bun-only machine
whose agent bootstraps from that file was told to use npx/npm/pnpm, none of
which exist there. All three copies now name `bunx` in the ladder and the
bootstrap fallback, with a `shipped-skills-sync` fragment assertion so the
gap is CI-caught (these copies are not byte-compared, only the engineering
family is).

P2 — `restorePrebuiltNativeBinary` collapsed every failure into `false`, so an
EACCES/EROFS from `copyFileSync` was indistinguishable from "no prebuilt
sub-package exists". Users on a read-only `node_modules` layer (a baked
container image mounted read-only — a common CI pattern) got the generic
lifecycle-script advice, which cannot fix a non-writable filesystem. Return a
`RestoreOutcome` instead and route `copy-failed` to its own message.

P2 — document that `trustedDependencies` only takes effect for `bun install` /
`pnpm install` run inside this repo: it does nothing for a `bunx` one-shot or
for a consumer's `bun add gitnexus`. The note sits on
`restorePrebuiltNativeBinary` so a future maintainer cannot mistake that
function for redundant and delete the thing the bunx path actually relies on.

P3 — the `binary_missing` bun advice told `bunx` one-shot users to edit a
package.json they do not have, and listed 1 of the 3 packages this package
now trusts. Both repair messages now share one `BUN_REPAIR_LINES` const with
the full package list and a `bun install -g gitnexus` alternative.

Also: shortened the bootstrap note and raised the CLAUDE.md block budget
2900 -> 2950. The note has to name every install-free runner (that is the
point of the bun lane), and main's own growth since this PR's last green CI
had already pushed the generated block over the old ceiling.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_015epfxkEMsmHFNVSFQqAkB4

* refactor(cli): simplify the #2765 review fixes

Cleanup pass over the previous commit — no intended behavior change except
the doctor status line noted below.

Reuse: `probeRuns()` duplicated `probeVersion()`'s entire spawn setup — same
argv, timeout, `windowsHide`, and the CVE-2024-27980 Windows-shim workaround —
in a file with two byte-identical committed copies, so the shim rule lived at
four sites. Its docstring's own objection was to the RETURN SHAPE, not to
reuse, so `probeVersion` now returns `{ ran, major, minor }` and `hasBun` reads
`.ran`. Existing callers only read `major`/`minor`, so nothing else changes.

Also dropped a pointless `const runs = () => …` thunk (`&&` already
short-circuits), and deleted a new test that was a character-for-character
duplicate of `falls back to npx when npm is null-absent and pnpm is also
absent` — its cheapest-first-gate rationale moved into that test's comment.

Correctness in the budget comment: the claim that the bun rung is free because
"pnpm is absent there, so its probe never ran" was wrong. `formatAnalyzeCommand`
spawns `pnpm --version` unconditionally when no global `gitnexus` is on PATH —
that spawn IS how pnpm presence is discovered. Real worst case is 5 subprocesses
/ ~8s, and the 8s needs Windows (`shell: true` spawns cmd.exe for an absent
pnpm); on POSIX an absent pnpm ENOENTs in ~1ms. Comment now says that. Likewise
"a machine with npm or pnpm never pays" was wrong for npm 11+ without pnpm —
that IS the rung that pays.

Altitude: `copy-failed` changed only the message text while still returning
`kind: 'binary_missing'`, so `doctor` would have printed "✗ lbugjs.node missing"
directly above a message saying the binary IS present — exactly the
contradiction #2672 removed. Added a `binary_unwritable` kind, a doctor case,
and a `nativeStatusCases` row. The binary-missing message construction moved
out of `checkLbugNative` into `unrestorableBinaryFailure`, typed
`Exclude<RestoreOutcome, 'restored'>` so a new outcome forces a decision
instead of silently inheriting the lifecycle-script advice.

Drift: the trusted-package list was hand-spelled in five places in
native-check.ts, with "matches gitnexus/package.json" asserted only in a
comment. All five now render from one `NATIVE_BUILD_PACKAGES` const (rendered
output is byte-identical), and the test reads the list out of package.json
instead of restating it, so a fourth native package fails the test rather than
silently shipping stale advice.

Finally, replaced the absolute CLAUDE.md block cap with the ratio the two prior
justifications actually appealed to (`< 5465 * 0.55`). Raising 2700 -> 2900 ->
2950 was a ratchet with no ratchet: an absolute cap can only fail on the PR
that adds the character, and the fix is always to nudge the number. Also fixed
a stale runner ladder in skills-steering.test.ts that still omitted bunx.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_015epfxkEMsmHFNVSFQqAkB4

---------

Co-authored-by: drdave-flexnteos <revenaugh.david@gmail.com>
Co-authored-by: Claude Opus 5 (1M context) <noreply@anthropic.com>
Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
2026-08-06 08:40:36 +00:00
azizur100389
797e4ef8f6
fix(ai-context): document CLI graph fallbacks (#2803)
* fix(ai-context): document CLI graph fallbacks

Teach generated GitNexus guidance to pair mandatory MCP graph checks with repo-scoped CLI fallbacks so agents can keep working when MCP is unavailable.

Co-authored-by: Cursor <cursoragent@cursor.com>

* style(ai-context): satisfy Prettier

---------

Co-authored-by: Cursor <cursoragent@cursor.com>
2026-08-02 20:52:44 +01:00
Gergő Magyar
990d79ba8c
fix(mcp): make impact/context reproducible — deterministic ordering on every capped query (#2787) (#2796) 2026-08-02 17:03:15 +00:00
Gergő Magyar
010a7d806a
fix(schema): declare the full scope-resolution relation cross product (#2792) (#2793)
* fix(schema): declare the full scope-resolution relation cross product (#2792)

`RELATION_SCHEMA` was hand-listed, and every prior fix added only the
FROM/TO pair named in a crash report — `Const→Method` in #2769, the
Swift/Rust member pairs before it. So `analyze` kept aborting at
`assertDeclaredPair` on the next codebase whose edges happened to land on
a different pair; #2792 reports `Class→Variable` on Java.

Audit the surface instead of the symptom. `buildGraphNodeLookup` skips
any node whose label is not in `isLinkableLabel`, so the lookup holds
only linkable-labelled nodes — and both endpoints of every graph-bridge
edge resolve through that lookup. The emittable surface is therefore
exactly:

  FROM  LINKABLE_LABELS + File   (the module-level caller fallback)
  TO    LINKABLE_LABELS + CALL_TARGET_TYPES

`isCallerAnchorLabel` is a strict subset of linkable and contributes
nothing on top. `CALL_TARGET_TYPES` contributes `Delegate`, which
`tryEmitEdgeWithExplicitTargetId` can emit without going through the
lookup at all.

Generate that 14x14 block into the DDL rather than listing it: 223 -> 322
declared pairs, and no future pair from these sets can be missing by
construction. The containment/inheritance/DI/route/cluster/PDG pairs stay
hand-declared — no single predicate describes them.

Both label sets live in the ingestion layer, which `core/lbug` must not
import, so schema.ts carries twin lists. test/unit/schema-pair-coverage.ts
derives the requirement from the originals and fails CI when either set
grows without the pairs landing here — the piecemeal loop this fix ends.

Measured before widening: at 322 pairs the cost is inside noise
(1.09s vs 1.12s per 300 anchored queries on a 32-table DB), but the full
32x32 cross product is ~1.8x on untyped-endpoint anchored queries. The
audited subset is the right scope, not "declare everything".

INCREMENTAL_SCHEMA_VERSION 34 -> 35: LadybugDB fixes endpoint pairs when
the rel table is created, so a pre-v35 database physically cannot store
these edges.

Closes #2792

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(schema): declare the non-bridge structural pairs COBOL and Vue emit

The generated scope-resolution block closed the half of RELATION_SCHEMA a
label predicate can describe. The hand-declared half was still stale: with
#2791's Function->Variable fix applied, `analyze` continued to abort on this
repo's own test/fixtures/lang-resolution with

  Relationship label pair Module→Property is not declared

A full sweep (assertDeclaredPair patched to log-and-skip, run over the whole
fixture corpus) found 13 undeclared pairs over 106 edges. This branch already
covered 3 of them via the cross product; the remaining 10 come from emitters
outside the graph bridge:

  - cobol-processor.ts mints Module / Namespace / Record / Property /
    CodeElement and wires them with CONTAINS, CALLS and ACCESSES (9 pairs)
  - vue-sfc-extractor.ts emits BINDS_EVENT_HANDLER from a handler Function to
    the child component's File, the only edge whose target is a File (1 pair)

CodeElement, Namespace, Record and File are in neither scope-bridge label set,
so neither the generated block nor schema-pair-coverage.test.ts can reach them.

Adds test/integration/structural-pair-coverage.test.ts, which derives the
requirement from a corpus instead of a predicate: it runs the real pipeline
over the non-bridge fixtures and requires every FROM/TO pair they produce to
be declared. Mutation-checked — dropping `FROM Function TO File` fails it with
exactly Function|File.

Verified: cobol-app, vue-basic and php-transitive-traits now index instead of
aborting; the full lang-resolution corpus completes at 10,876 nodes / 18,517
edges; scrypster/muninndb at 0b7a4272 (the #2789 repro) completes at 20,069
nodes / 71,580 edges, matching #2791 exactly, so this supersedes that PR.

* refactor(test): simplify the structural pair coverage guard

Cleanup pass over the previous commit. No behaviour change to the schema.

- reuse `FIXTURES` and `runPipelineFromRepo` from resolvers/helpers.ts instead
  of re-deriving the fixture root and importing pipeline.js directly
- gate on `distWorkerExists()` like every other integration test that passes
  `workerUrlForTest`, so a missing dist skips rather than fails
- run the three fixtures with `it.concurrent.each`; they share nothing and the
  cost is almost all worker spawn plus grammar load, which overlaps well
  (tests phase 21-24s -> 5.6s measured)
- replace the sentinel-in-a-Set filter with a plain `.filter()` chain, matching
  the sibling unit test, and move the declared/table lookups off the per-edge
  path onto the deduped set
- move the pure string pin out of the integration tier into
  schema-pair-coverage.test.ts, where the identical construct already lives, so
  it needs no build and survives fixture deletion
- trim the schema and test prose that restated the code, and correct the
  BINDS_EVENT_HANDLER attribution: it is emitted by
  languages/vue/scope-resolver.ts, not vue-sfc-extractor.ts
- amend the v35 comment to mention the 10 structural pairs it now also stamps

Still mutation-checked: dropping `FROM Function TO File` now fails both the
integration sweep and the unit pin with exactly Function|File. 89 tests green.

* fix(schema): generate the attachment pair surface and close four analyze aborts

Review of the generated scope-bridge cross product found four `analyze`
hard-aborts still live at head, each reproduced end-to-end on the default
user path (`analyze --index-only --skip-git`):

  Method→Annotation   Spring `@Bean` + `@ConditionalOnMissingBean` (Java + Kotlin)
  Method→File         Vue Options-API `methods:` handler bound to a child event
  Namespace→Record    COBOL `DECLARATIVES` / `USE AFTER STANDARD ERROR ON <file>`
  Class→Tool          `@mcp.tool()` applied to a class

All four are pre-existing on main, and both existing guards were structurally
blind to them: the unit guard derives from LINKABLE_LABELS ∪ CALL_TARGET_TYPES
(none of Annotation/Tool/Record/File-as-target is a member) and the corpus
guard ran three fixtures that exercise none of these emitters. All 16 tests
passed while all four crashes were live.

The PR's model — "bridge endpoint × structural endpoint" — does not fit:
Namespace→Record is structural on both sides. The property that does hold is
that the ANCHOR is a lookup result, not a literal at the emit site, so the
emitter cannot constrain its label. That gives a second closed-form rule:

  DEFINITION_ANCHOR_LABELS × ATTACHMENT_TARGET_LABELS

DEFINITION_ANCHOR_LABELS is derived from NODE_TABLES by subtraction, so a new
node table joins automatically. 332 → 450 declared pairs.

Sized against a committed harness (gitnexus/bench/schema-pairs), real
@ladybugdb/core, identical data: 450 costs 0.93–1.05× of 332 on untyped-endpoint
anchored queries — inside noise — versus 1.22–1.43× at 641 and 2.03–2.34× at
1024. The harness reproduces the known #2792 cliff, which is what makes the 450
figure trustworthy.

Also in this change:

- Delete the 161 hand-declared pairs the rules already generate (233 → 72).
  The declared set is byte-identical at 450; those lines were load-bearing
  shadow, because the generator suppresses anything already declared
  structurally, so narrowing a rule later would silently keep pairs alive.
  A new guard fails CI if a hand-declared pair is ever re-added inside a rule.
- Import LINKABLE_LABELS / CALL_TARGET_TYPES instead of hand-copying them.
  The twins' stated justification ("the ingestion layer must not be imported
  here") is false: csv-generator.ts and lbug-adapter.ts, siblings in the same
  directory, already do, and no rule in AGENTS.md / ARCHITECTURE.md /
  CONTRIBUTING.md / GUARDRAILS.md states otherwise.
- Resolve `resolveStreamGraphEmit` after the guards that rebind `options.force`,
  not at function entry. It gates on `force`, and every freshness guard runs
  ~360 lines later, so the v34→v35 bump would have pushed every existing index
  down the non-streamed emit path — losing the #2680 memory streaming added for
  the #2649 kernel-scale OOM, for exactly the population most likely to be
  memory-constrained.
- `UndeclaredRelationPairError` now carries the relationship type, both node ids
  and the source file, with a matching CLI branch. The old message named only
  the abstract label pair, which a user could not act on. Found through the
  cause chain, since pipeline-phases/runner.ts rewraps every phase failure.
- Share one classifier (`relPairKeyFor`) across the router, both emit sinks and
  the corpus guard, which previously hand-mirrored the router's skip rule; one
  cause-chain walker in lib/utils.ts; one exported pair-matching regex.
- Corpus guard: four new fixtures reproducing the aborts, per-fixture sentinel
  pairs so a fixture that stops emitting fails loudly instead of passing
  vacuously on an empty graph.

The per-edge path stays allocation-free: the failure context is passed
positionally and the message is built only inside the throw.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_0182jkjQqzACkJKYw4MLDnhX

* test(bench): re-baseline the COBOL capture fingerprint for the new fixture

`bench/scope-capture` globs `lang-resolution/cobol-*`, so the
`cobol-declaratives` fixture added in 81daf370e (to reproduce the
`Namespace→Record` analyze abort) joined that corpus and shifted the
fingerprint — 14 → 15 files.

Verified corpus-only, not a capture change: with that one fixture moved
aside the fingerprint is byte-identical to the prior baseline
(d45bb091…), and 81daf370e touches no COBOL capture code. The new value
reproduces CI's reported hash exactly. Scaling 0.677 < 1.5 budget.

`bench/scope-capture/measure.mjs --check` → PASS (15 languages).

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_0182jkjQqzACkJKYw4MLDnhX

---------

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Claude Opus 5 (1M context) <noreply@anthropic.com>
2026-08-02 16:26:25 +01:00
azizur100389
d268f351d3
fix(group): preserve manifest-only impact crossings (#2784)
* fix(group): preserve manifest-only impact crossings

Keep proven manifest cross-repo hits when the far endpoint has no concrete graph symbol, avoiding a guaranteed failed UID fan-out.

* fix(group): verify manifest-only neighbor repos

Keep manifest-only crossings from bypassing neighbor repository resolution so unavailable repos still surface as truncated fan-out.

* fix(group): distinguish boundary-only impact crossings

Keep manifest-only boundaries visible without treating unattempted fan-out as completed impact or escalating risk, and cover service scope, deduplication, and real bridge persistence.

---------

Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
2026-08-01 20:24:06 +01:00
azizur100389
02ebf8f199 fix(ai-context): emit compact markdown tables 2026-07-27 08:47:38 +01:00
azizur100389
24584297d2
fix(trace): add file disambiguator alias (#2705) 2026-07-27 05:05:14 +01:00
azizur100389
8307e3f01f
fix(setup): preserve existing OpenCode config.jsonc (#2694)
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2026-07-26 16:23:34 +01:00
Gergő Magyar
3f1e23ba83
fix: stop misdiagnosing glibc-too-old native loads (#2672) and name the Windows FTS zero-install fix (#2669) (#2689)
* docs(plans): add glibc-windows-fts-diagnostics plan

Implementation plan for #2672 (glibc-too-old native-load misdiagnosis)
and #2669 (Windows FTS prerequisites + Git Bash zero-install workaround).

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(cli): stop prescribing a reinstall when the host glibc is too old (#2672)

The LadybugDB prebuilt binary requires GLIBC_2.34 (dlopen/pthread_* at 2.34,
fstat64/lstat at 2.33). On an older host the loader reports

  version `GLIBC_2.34' not found (required by .../lbugjs.node)

and checkLbugNative answered with "truncated file, ABI mismatch, or
wrong-platform binary" plus instructions to re-run install.js. That advice is
actively wrong for this class: every download ships the same prebuilt binary,
so the reinstall fails identically and the user loops.

Add glibcTooOldMessage: match a GLIBC_<version> token on a "not found" line,
report the highest required version (compared numerically, so 2.9 < 2.34)
alongside this host's glibc from process.report, state that reinstalling will
NOT help, and point at the real options. The branch sits on the arm where the
probe actually ran and failed, so an unrunnable probe still fails open (#2441).

The glibc read is local rather than analyzer-identity's detectLibcVariant:
native-check is the dependency-light startup gate and must not statically pull
in a module the CLI reaches through a dynamic import.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(lbug): name the Git Bash zero-install fix for Windows FTS load failures (#2669)

The Windows error-126 remedy already refuses to prescribe a reinstall and names
the VC++ redistributable and the OpenSSL 3 DLLs, but not where those DLLs
already exist on the machine. #2669's reporter had the redistributable
installed and still failed: the same command failed in PowerShell and succeeded
in Git Bash, because Git for Windows puts libssl-3-x64.dll and
libcrypto-3-x64.dll on PATH via C:\Program Files\Git\mingw64\bin.

Add that hint to the Windows-126 and structural missing-dependency remedies
through one shared const, following the VC_REDIST_INSTALL_HINT anti-drift
pattern (#2383 F5). Placing it in the builders rather than at a call site is
load-bearing: markUnavailable caches the whole diagnosis (#2383 F3) and
ftsDegradedWarning replays that cached remedy, so a call-site fix would miss
the MCP query and /api/search surfaces.

The hint is a fixed system path, never a user-profile one — remedy text is not
path-redacted, and fts-degraded-warning.test.ts asserts no C:\Users\ path ever
reaches a user. Both touched tests now assert that property directly.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* docs(readme): document the Linux glibc floor and Windows FTS prerequisites (#2672, #2669)

Requirements listed only Node and git, so neither runtime prerequisite that
these two issues turn on was discoverable before hitting the failure.

- Linux: the LadybugDB prebuilt binary needs glibc 2.34+; name the distro
  versions that clear it and state plainly that reinstalling does not help.
- Windows: full-text search needs the VC++ 2015-2022 x64 redistributable AND
  OpenSSL 3 on PATH. The redistributable alone is not sufficient (#2669's
  reporter had it), and Git for Windows already ships the OpenSSL DLLs, so
  running from Git Bash or prepending mingw64\bin is a zero-install fix.
  Without them analyze still succeeds but the index carries no search tables.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* chore: drop the plan document from version control

docs/* is gitignored; the plan was force-added so it would travel with the
work. It is working material, not a repository artifact — the code, tests and
README carry the reasoning that matters.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

* fix(cli): stop doctor reporting a present-but-unloadable binary as missing (#2672)

doctor printed "✗ lbugjs.node missing" for every failed native check — including
the case this PR is about, where the binary is right there and merely fails to
load because the host glibc is too old. It then wrote the real detail to stderr
directly beneath, so the two lines contradicted each other and the headline sent
users to reinstall a file they already had. It said the same for a truncated
download and for an entirely absent @ladybugdb/core package.

checkLbugNative already knows which of the three it found, so record it: a
`kind` discriminator ('package_missing' | 'binary_missing' | 'load_failed') set
at each failure return. doctor renders it through a new exported
`nativeStatusLine`, following the existing pageSizeDoctorLines/poolSizeDoctorLine
pure-helper pattern — which also makes the line testable, where before it had no
coverage at all. An unrecognized or absent kind keeps the conservative "missing".

Deriving this in doctor with a second existsSync would have re-stat'd a file the
check had already inspected, and could disagree with what it actually observed.

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

---------

Co-authored-by: Gergo Magyar <gergomagyar0@gmail.com>
Co-authored-by: Claude Opus 5 (1M context) <noreply@anthropic.com>
2026-07-25 10:05:57 +01:00
Gergő Magyar
ad1b9227c4
fix: large-repo analyze OOM and false worker-timeout cascade (#2649) (#2679) 2026-07-25 09:16:17 +01:00
jecanore
a500f70d6f
feat(analyze): add opt-in --self-commit flag for AGENTS.md/CLAUDE.md churn (#2640)
* feat(analyze): add opt-in --self-commit flag for AGENTS.md/CLAUDE.md churn

Adds a new `--self-commit` flag to `gitnexus analyze`. When passed, any
AGENTS.md/CLAUDE.md changes the run makes (including first-time creation)
are auto-committed, scoped to only those two files (never `git add -A`).
No-ops silently if neither exists, neither changed, or the repo has no
git identity configured — never fails the surrounding analyze run.

Complements #1478 (--no-stats): that flag removes the volatile counts
entirely, this one keeps them but eliminates the dangling working-tree
diff they otherwise leave behind on every run.

Closes #2639.

* fix(analyze): log a warning when --self-commit fails to commit

Addresses review feedback on #2640: the commit step's catch block was
silently swallowing failures (e.g. missing git identity) with no signal
to the user. Logs via the existing pino logger (matching the rest of
the codebase's convention) with the error and the file list, while
still never throwing — analyze must not fail over this.

New test forces a real commit failure (missing identity, with
useConfigOnly + isolated HOME/XDG_CONFIG_HOME/GIT_CONFIG_NOSYSTEM so no
ambient global git config on the CI runner can mask it) and asserts the
warning is captured via logger's _captureLogger test hook.

* fix(analyze): refuse to sweep pre-existing edits into --self-commit

Addresses both state-safety blockers from review round 2 on #2640:

1. selfCommitContextFiles could not distinguish a pre-existing unstaged
   user edit in AGENTS.md/CLAUDE.md from this run's generated stats
   refresh — both just showed up as "the file is dirty" — so a user
   edit sitting in either file got silently swept into the generated
   commit. Fixed by snapshotting each candidate's cleanliness via the
   new snapshotSelfCommitSafety() BEFORE analyze writes to it; only
   files confirmed safe (nonexistent pre-run, i.e. first-time creation,
   or clean pre-run) are ever added/committed. A file already dirty
   pre-run is skipped and logged, never touched.

2. On a failed `git commit` (e.g. missing identity), the preceding
   `git add` had already staged the safe files, and analyze reported
   nothing happened while silently leaving them staged. Fixed with a
   `git reset -- <safe files>` in the commit-failure catch, restoring
   the index to its pre-add state for exactly the files this helper
   staged.

Wired analyze.ts to call snapshotSelfCommitSafety() once before
runFullAnalysis (which is where the actual AGENTS.md/CLAUDE.md write
happens, on both the fast path and the primary run), threading the
result through both existing selfCommitContextFiles() call sites.

New tests: a pre-dirty AGENTS.md is skipped while a clean CLAUDE.md
still commits normally, and a post-add commit failure leaves nothing
staged. Updated all existing selfCommitContextFiles() call sites for
the new required safety-map parameter.

* i18n(cli): add zh-CN translation for --self-commit help text

Addresses magyargergo's follow-up on #2640: --self-commit was missing
from the analyze command's OPTION_DESCRIPTION_KEYS map, so its help
text never went through localizeCliHelp and always rendered in English
regardless of locale. Adds the help.option.analyze.selfCommit key to
both en.ts and zh-CN.ts and wires it into help-i18n.ts, matching the
existing --no-stats/--skills entries.

---------

Co-authored-by: Gergő Magyar <gergomagyar@icloud.com>
2026-07-25 06:23:26 +01:00