* refactor: prune internal seams and preserve configuration ownership
* fix(setup): keep YAML aliases and inherited registration settings on refresh
- Reuse an unchanged YAML collection only while every alias in it still
resolves after the edit; otherwise rebuild it so the alias becomes its
value. A sibling anchor replaced or moved in the same refresh no longer
leaves an unresolved alias in Hermes or Goose output.
- Keep a connection selector whose existing value already chooses stdio
(for example an inherited Hermes transport: stdio) instead of superseding
it; remote selectors are still replaced. Explicit stdio selectors are
therefore no longer rewritten (Kimi expectation updated).
- When the whole Hermes registration is inherited through a merge,
override it with that merge and write only the changed fields.
* fix(setup): edit registration fields whose YAML key is an alias
A key written as an alias to a string scalar (for example *field with
field: &field env) was treated as a source-only key, so any change to
its value was refused in Hermes and Goose. Resolve such keys to their
string, keep the aliased spelling while its anchor survives the edit,
and write the plain key when the same edit rebuilds the anchor.
* test(process): bound cleanup-boundary waits and always release gates
Both cancellation tests awaited a bare started promise and released
their gates only on success, so a missed boundary waited for the outer
deadline and could leave cleanup parked. Use awaitAcknowledgement and
release and join the cleanup in finally.
* fix(setup): repair only aliases an edit leaves unresolved
Replace the pre-edit alias survival guess, which expanded aliases to
sibling anchors that survive unchanged, with an exact repair: record
what each alias in the replaced value resolves to, write the edit, then
replace only aliases left without a preceding anchor by that value.
- Keep an aliased key's source position, so its anchor stays ahead of
later aliases.
- Treat an aliased key as its string only when no other key in the map
resolves to the same string; an ambiguous one stays guarded.
- Override an inherited Hermes registration only when the requested
entry keeps every inherited field, so an explicit replacement can drop
remote selectors.
* fix(setup): repair aliases whose binding an edit changes, keeping comments
An alias whose own anchor was removed could resolve to an earlier anchor
with the same name and silently change value. Record the node each alias
resolved to and repair any alias that no longer resolves to that node.
Carry the alias's comments and spacing onto the repaired value.
* test(setup): split the Hermes anchor and merge refresh cases
* fix(setup): refuse removing an overridden key its merge would restore
The merge-retention check skipped keys the mapping also overrides, so
dropping such a key (for example a remote url during an explicit stdio
replacement) let the retained merge restore it. Check removal before
skipping overridden keys, so the edit is refused with the existing
message instead of producing a registration that cannot be applied.
Separate syntax, semantic uncertainty, examination limits and observed Electron applicability at the static producer, then preserve them through worker, graph and retained/inline summary views. Derive the established parse_status from the same facts and leave historical measurements unknown. Give semantic resource-limit classifications one schema owner.
Replace repeated block-prefix searches and copies with collector-scoped syntax indexes. Keep invocation environments separate, charge indexing/replay to the existing work budget and yield during prefix work. Remove the superseded synchronous collector entrypoint.
Validated producer, worker, CLI/MCP, historical and partial-coverage regressions, plus actual cancellation during indexing. Bounded authored 128/256-call controls preserved all prior facts while replacing repeated search/copy work with one index pass; this is not a throughput or agent-token benchmark.
Use compact MCP input advertisements by default while preserving explicit full, canonical validation, output contracts and complete Evidence. Require an explicit selected catalog for runtime identity and honor both profiles in CLI status.
Real ripgrep/Zellij SDK tasks, independent ELF oracle, actual client trials, profile parity workflows and CI are recorded in experiments/analysis-efficiency/mcp-input-catalog.md. SDK token estimates improve; actual Codex token savings and general latency/memory gains are not established.
Refs #5861
BREAKING CHANGE: MCP input advertisements default to compact. Set REA_MCP_INPUT_SCHEMA_PROFILE=full for complete advertised guidance and nested constraints.
Expose exact-path, selected-property, paged reads of retained JavaScript application facts through the shared CLI/MCP analysis view. Preserve original identities, complete row Evidence and partial coverage; retain reproducible real-Joplin and actual-agent measurements, including negative cost results.
Fixes#4190. Part of #4027. Code mode remains deferred by #4091.
Integrate main after #4274. Validation: 114 distinct focused cases across documented invocations, 106 Python cases, full static/docs checks and 18 version-labelled real-application workflows with 9 complete CLI/MCP view parity controls. Preserve two local fixture deadline failures and the unchanged test passing on an available single CPU. Final-head CI passed all 36 jobs after one Windows timeout retry without source changes; both exact-head automated reviews are clear and all review threads resolved. Downloadable apps and raw large Evidence/transcripts are excluded.
Co-authored-by: Kaoru0822 <208281322+kaoru0822-kitauji@users.noreply.github.com>
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