Files
msd-core/docs/adr/0656-research-module-seam.md
Tom Boucher 11afca2968 feat(#656): Research module — content-addressed cache + provider seam + registry-API legitimacy (#664)
* feat(#656): add Research Store module (content-addressed cache, TTL staleness)

Content-addressed research cache behind a clock seam: researchKey (sha256, deterministic), putResearch/getResearch ({hit,stale}, never throws), ttlForSource (curated HIGH 30d / MED 7d / web LOW 1d), two-tier resolveStorePath (curated -> ~/.gsd/research-cache, web/synthesis -> project .planning/research/.cache). 28 behavioral + property tests; boundary coverage at ttl-1/ttl/ttl+1.

Issue #656. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* feat(#656): add Research Provider module (waterfall + confidence + plan)

Single source of truth for the Balanced provider waterfall (docs Context7->Ref->Jina, web Exa+Tavily, fallback Perplexity/Brave, Firecrawl scrape-only). classifyConfidence stamps HIGH|MEDIUM|LOW by provider (never throws). providerAvailability maps config flags to usable providers. planResearch checks the Research Store (injected seam) and returns cache-hits + a per-question fetch plan, falling through the waterfall to the always-available websearch terminal. 22 behavioral + property tests.

Issue #656. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* feat(#656): add Package Legitimacy module (registry-API verdicts, slopcheck optional)

Replaces the pip-install-or-degrade slopcheck prose gate with code: classifyPackage (pure, never throws) computes OK|SUS|SLOP from tunable thresholds (minAgeDays 30, minWeeklyDownloads 1000, requireRepo). checkPackages queries injectable npm/PyPI/crates registry adapters (real https with 5s timeout, degraded-not-thrown on failure); slopcheck is one optional adapter that can only escalate severity, never degrade to [ASSUMED]. 34 behavioral + property tests; boundary coverage on age and downloads (limit-1/limit/limit+1).

Known follow-up: real npm adapter must add api.npmjs.org last-week downloads fetch (currently null -> unknown-downloads). Issue #656. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* feat(#656): detect Tavily/Ref/Perplexity/Jina provider keys; complete npm downloads adapter

config: add tavily_search/ref_search/perplexity/jina availability flags (env var or ~/.gsd/<x>_api_key), mirroring brave_search/exa_search/firecrawl, so the Research Provider waterfall can gate them. package-legitimacy: real npm adapter now fetches api.npmjs.org last-week downloads (bounded, degraded-not-thrown) so weeklyDownloads is populated. +12 config tests; 34 legitimacy tests unchanged.

Issue #656. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* feat(#656): expose Research seam via gsd-tools query (research-plan, research-store, package-legitimacy)

Routes the L2-hybrid surface so agents reach it as CLI: 'query research-store get/put' (cache, HOME-sandboxable), 'query research-plan --input' (cache-hits + fetch plan from planResearch), 'query package-legitimacy check --ecosystem' (async registry verdicts). Commands skip .planning root resolution and appear in top-level usage. 5 behavioral runGsdTools tests; command-contract unchanged (335).

Issue #656. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* docs(#656): document Research module (CONTEXT predicates, ADR-0656, architecture, changeset)

Adds GSD-RESEARCH.* + DEFECT.RESEARCH-PROVIDER-PROSE-DRIFT predicates to CONTEXT.md, ADR-0656 recording the L2-hybrid seam decision, a docs/ARCHITECTURE.md Research Module subsection, and an Added changeset fragment (pr:0, backfill on PR). Notes the #657 deferrals (agent collapse + install.js MCP mapping).

Issue #656. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* chore(#656): sync inventory for research modules

Regenerate INVENTORY-MANIFEST.json and bump docs/INVENTORY.md CLI Modules count 82->85 with rows for research-store/research-provider/package-legitimacy (DEFECT.INVENTORY-DRIFT).

Issue #656. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* chore(#656): eslint-ignore generated research .cjs artifacts (ADR-457)

research-store/research-provider/package-legitimacy .cjs are tsc-generated from src/*.cts, so they belong in the ESLint ignore block (lint the .cts source, not the emitted .cjs). Fixes tests/551-eslint-bin-lib-coverage.

Issue #656. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* chore(#656): backfill changeset pr number to #664

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* chore(#656): satisfy eslint lint-tests gate

Fix 20 eslint errors in the new research files: use helpers.cleanup() instead of raw fs.rmSync() in tests (local/no-raw-rmsync-in-tests, Windows-EBUSY retry budget); drop redundant '| string' union members and unnecessary type assertions; deterministic object normalization in researchKey (no-base-to-string). Logic unchanged; 6180 tests still green.

Issue #656. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* fix(#656): harden package legitimacy per review (W1/W2/I3/I4)

W1: httpsGet now reads statusCode; npm/PyPI/crates map 404 -> exists:false -> SLOP (registry-existence is the #1 slopsquatting defense; previously only npm caught it). Transport made injectable (_setHttpGet) for hermetic 404 tests. W2: suspicious-postinstall is now terminal SLOP independent of the optional slopcheck adapter, and the regex drops the bare https?:// arm (over-fired on esbuild/sharp/node-gyp) for shell-exec/download-exec signatures only. I3: checkPackages now threads version to registry.lookup and adapters verify that specific version exists. I4: moreServerVerdict -> moreSevereVerdict. +11 regression tests (all RED-first); 45 total green.

Addresses review by @davesienkowski on #664. Issue #656. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* fix(#656): research-store tier coherence + freshness + version TTL (W4/I1/I2/I4)

I1: tier now derives from source (curated -> user ~/.gsd, else -> project .planning), not kind, so put-tier and get-tier can't diverge; kind is a key component only. W4: getResearch searches both tiers and returns the freshest (non-stale preferred), never letting a stale curated entry shadow a fresh web one; blank version caps TTL at 1 day (no 30d on version-blind keys). I2: atomic platformWriteSync instead of raw fs.writeFileSync on the shared global path. I4: dropped the dead ttlForSource arm. CLI get now searches both tiers. +5 RED-first regression tests; 38 green.

Addresses review by @davesienkowski on #664. Issue #656. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* fix(#656): expose classifyConfidence as a CLI route, killing dead code (W3)

Adds 'gsd-tools query classify-confidence --provider X [--verified]' so research agents get the confidence tier FROM CODE (provider waterfall + verification lever) instead of asserting it in prose. classifyConfidence previously had no runtime caller. HIGH means 'trusted provider'; --verified raises web results to MEDIUM (verification semantics documented in ADR-0656). +4 behavioral tests.

Addresses review by @davesienkowski on #664 (W3). Issue #656. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* fix(#656): close Codex adversarial-review findings (path-traversal, version-age, malformed-cache)

HIGH: research key must be 64-hex sha256 (isValidResearchKey) + resolved-path containment check in put/get + CLI validation -> blocks '../../x' arbitrary-file-write. HIGH: package legitimacy now derives publishedAt from the REQUESTED version (npm time[version], PyPI releases[version] upload_time, crates versions[].created_at) so a new malicious version of an old package can't inherit old age and evade 'too-new'. MEDIUM: getResearch validates entry shape (finite fetched_at + positive ttl + required fields) -> malformed cache entry is a miss, not fresh-forever. +regression tests (RED-first); 111 green.

Codex adversarial review (required pre-PR gate). Issue #656. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* fix(#656): close code-review correctness findings

(1) package-legitimacy CLI now rejects unknown --flags instead of silently consuming the following package as a flag value; only --ecosystem takes a value. (2) crates recent_downloads (90-day) normalized to a weekly figure before the minWeeklyDownloads threshold (was ~13x too lenient). (3) research-plan --input validates parsed JSON is an object with an Array questions before destructuring -> clean usage error instead of an uncaught TypeError on null/bad input. (4) research-store put rejects a flag value that is itself a --flag (no more storing '--source' as content). (5) planResearch skips questions whose text is not a non-empty string instead of emitting question:undefined. +13 RED-first regression tests; 143 green.

Code-review gate. Issue #656. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* refactor(#657): extract researcher documentation_lookup to shared @-reference

6 researcher agents carried a near-duplicate <documentation_lookup> block; consolidate into gsd-core/references/research-documentation-lookup.md (@-included). Unifies the ctx7 CLI fallback to the safer 'command -v ctx7' guard (drops silent 'npx --yes ctx7@latest' execution in 5 agents). Behavior-preserving dedup; inventory 63->64 references. Phase A of the agent collapse.

Issue #657. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* refactor(#657): extract researcher philosophy + verification-protocol to shared @-references

philosophy and the pitfalls+pre-submission-checklist common-core were near-duplicated in project/phase researchers; consolidate into gsd-core/references/research-{philosophy,verification-protocol}.md (@-included). phase-researcher keeps its 3 extra checklist items inline. Pre-submission domains checklist made agent-agnostic so project-researcher doesn't lose features/architecture coverage. Write-contract intentionally left inline (bug-214 tests assert it verbatim). Inventory 64->66 refs. Behavior-preserving. Phase A.

Issue #657. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* feat(#657): wire gsd-phase-researcher to the Research seam (Phase B / S1)

The phase researcher now CALLS the code seam instead of carrying inline mechanics: provider waterfall -> 'gsd-tools query research-plan' (+ research-store put to cache digests); confidence-tier prose -> 'gsd-tools query classify-confidence'; slopcheck pip-install protocol -> 'gsd-tools query package-legitimacy check'. This makes the Research module a real runtime consumer (validates the seam end-to-end, addresses reviewer S1) and removes the duplicated waterfall/confidence/slopcheck prose. RESEARCH.md output contract, commit step, structured returns, and Phase-A @-includes unchanged. package-legitimacy-gate.test.cjs rewritten prose-grep -> behavioral (asserts the seam invocation).

Issue #657. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* feat(#657): wire gsd-project-researcher to the seam + add tavily/ref/jina MCP tools (Phase C.1)

project-researcher now calls gsd-tools query research-plan / classify-confidence (+ research-store put) instead of the inline provider waterfall + confidence-tier prose (mirrors the phase-researcher rewire; no package-legitimacy — phase-only). Output contract (STACK/FEATURES/ARCHITECTURE/PITFALLS/SUMMARY.md + sections, no-commit, structured returns, Phase-A @-includes) unchanged. Adds mcp__tavily/ref/jina__* to the project/phase/ui researcher tools frontmatter (Balanced provider set) so install.js MCP mapping (C.2) has a consumer.

Issue #657. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* test(#657): cover tavily/ref/jina MCP install handling + frontmatter parity guard (Phase C.2)

Investigation: exa/firecrawl have no explicit per-runtime tool-mapping — every mcp__<server>__* except context7 rides the generic passthrough (Copilot lowercases; OpenCode/Cursor/Windsurf/Augment keep as-is; Gemini auto-discovers). tavily/ref/jina are handled identically, no install path broken. Added 12 copilot-install passthrough tests + a mcp-tool-inheritance parity guard (tavily co-declared with exa, jina with firecrawl, ref present across the 3 web researchers) so the MCP set can't drift. No io.github registry ids invented (none sourceable in-repo); documented as a follow-up. 488 tests green.

Issue #657. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* feat(#657): profiles as source of truth for researcher agents + drift-guard (Phase C.3)

scripts/research-profiles.cjs declares each of the 7 researcher agents' identity + contract (name, description, color, tools, required @-includes, required gsd-tools seam calls, output-contract markers). scripts/gen-research-agents.cjs --check validates every committed agent against its profile; --write regenerates ONLY the frontmatter from profiles (body untouched) and is a verified no-op against the current agents (zero diff = fidelity). tests/research-agent-profiles.test.cjs is the DEFECT.GENERATIVE-FIX drift guard. Design note: profiles govern the generatable/contract surface rather than destructively regenerating the disparate operational prose bodies (those were deduped via @-includes in Phase A). scripts/ is not inventoried (no inventory change).

Issue #657. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* fix(#657): complete agent provider-dispatch + parity guard; align legitimacy field; validate profiles

Adversarial-review findings: (HIGH) the seam-wired agents' Step-C dispatch only mapped 6 providers, so a planResearch result of jina/ref/perplexity/brave (reachable via the waterfall fallbacks) had no handling -> agent stall; completed both agents' dispatch to all 9 PROVIDER_WATERFALL ids + a catch-all, and added a parity test asserting agent dispatch stays in sync with research-provider PROVIDER_WATERFALL (DEFECT.GENERATIVE-FIX). (MEDIUM) phase-researcher package-legitimacy JSON example used 'package' but the module returns 'name' -> aligned. (LOW) gen-research-agents checkAgent now returns a clear failure for a malformed profile instead of throwing. +parity/validation tests (RED-first).

Issue #657. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* fix(#656): make classifyConfidence verification-evidence-driven (W3)

Confidence conflated provider authority with claim verification — context7/ref
stamped HIGH purely by provider identity, and the only verification lever was a
self-set --verified flag. Split into two axes: provider authority (static) +
verification evidence (code-computed). HIGH now requires ground-truth
corroboration (legitimacyVerdict OK), independent of provider; authority alone
caps at MEDIUM; SLOP caps at LOW; the self-reported --verified is demoted to a
MEDIUM-only web lever. HIGH = corroborated-against-authoritative-source, not a
correctness guarantee. Adds --legitimacy-verdict to the classify-confidence CLI;
updates CONTEXT.md predicate + ADR-0656 (tier set unchanged, ADR-consistent).

Addresses davesienkowski's W3 review on #664.

Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>

* fix(#656): bind classify-confidence verdict to code, closing CLI self-grading

Adversarial review found the new --legitimacy-verdict flag was caller-supplied,
so an agent could self-assert OK->HIGH without any real legitimacy check —
reintroducing the exact self-grading hole W3 closes. Remove the free flag; the
CLI now computes the verdict via checkPackages only when --package/--ecosystem
is given (code-computed, not agent-asserted). Update the stale CLI test
(context7 alone -> MEDIUM) and extend the property test to vary legitimacyVerdict.

Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>

---------

Co-authored-by: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
2026-06-05 17:58:48 -04:00

4.8 KiB

ADR-0656: Research Module — L2-hybrid seam for cached, curated-first research

  • Status: Accepted
  • Date: 2026-06-03

Context

Research in GSD was entirely prose-duplicated. Seven researcher agents each carried their own copy of the provider waterfall (Context7, Ref, Jina, Exa, Tavily, Perplexity, Brave, Firecrawl, websearch), their own confidence-tier definitions, and their own fallback policy. Every time a new provider was added or the ordering changed, all seven files drifted independently — the exact failure mode META.RULE.brief-no-paraphrase exists to prevent.

There was no research cache. Agents checked for an existing RESEARCH.md file but had no TTL, no content-addressing, and no notion of staleness. Identical queries re-fetched from live providers across phases and projects.

Package legitimacy was a pip-install slopcheck bolt-on. When the slopcheck binary was absent or crashed, every package was silently downgraded to [ASSUMED], removing the legitimacy gate entirely rather than degrading gracefully.

Context7 was prompt-only: agents mentioned it in prose but there was no code-level integration, no cache, and no structured verdict returned to the orchestrator.

Decision

Introduce an L2-hybrid seam: code owns cache, provider policy, legitimacy verdicts, and confidence classification; MCP owns the actual network fetch (a .cjs module cannot call MCP tools directly).

Three modules are introduced under src/ compiled to gsd-core/bin/lib/*.cjs per ADR-457 (generated-single-source):

Research Store (src/research-store.cts): content-addressed cache keyed by sha256(ecosystem + library + version + query + kind). getResearch() never throws — it returns { hit, stale } mirroring the graphify staleness tri-state pattern. TTL is per-source: curated-doc providers get 30 days (HIGH), medium-quality sources get 7 days (MED), web/synthesis gets 1 day (LOW). Two storage tiers: curated-doc kinds write to ~/.gsd/research-cache (cross-project reuse); web and synthesis results write to .planning/research/.cache (project-local, gitignored).

Research Provider (src/research-provider.cts): single source of truth for PROVIDER_WATERFALL. Docs waterfall: Context7 → Ref → Jina → websearch. Web waterfall: Exa → Tavily → Perplexity → Brave → websearch. Scrape: Firecrawl → Jina (Firecrawl is scrape-only, not in docs/web discovery). planResearch() returns cache hits plus a fetch plan for misses. classifyConfidence() stamps HIGH | MEDIUM | LOW by provider authority + verification evidence — the tier set is unchanged (ADR-consistent), but HIGH now requires code-computed ground-truth corroboration (e.g. legitimacyVerdict: 'OK'); provider authority alone caps at MEDIUM; SLOP caps at LOW. Provider availability is driven by config flags and _API_KEY env vars; context7, jina, and websearch are always available as the terminal fallback.

Package Legitimacy (src/package-legitimacy.cts): registry-API verdicts via injectable adapters for npm, PyPI, and crates.io. Thresholds: { minAgeDays: 30, minWeeklyDownloads: 1000, requireRepo: true }. Verdict per package: OK | SUS | SLOP. slopcheck is an optional escalate-only adapter — it can only raise a verdict, never lower it — and is not the install-or-degrade gate. Absence of slopcheck leaves registry-API verdicts intact rather than downgrading everything to [ASSUMED].

All three modules are reachable via gsd-tools query research-plan | research-store | package-legitimacy.

Agents return a RESEARCH.md path; they never return raw fetched content. This enforces context discipline: subagent isolation, compact provider output, fetches-to-disk, cache-returns-digest.

Consequences

Positive:

  • Provider policy lives in one tested module. Adding or reordering a provider is a one-line change that propagates to all researcher agents.
  • Content-addressed cache eliminates redundant fetches across phases and projects.
  • Package legitimacy is registry-API-first and degrades gracefully; slopcheck enriches without gating.
  • The gsd-tools query interface is the test surface — behavioral tests can assert typed JSON output without source-grep.

Deferred to #657:

  • Collapsing the seven researcher agent .md files into generated-from-profiles agents (the prose waterfall duplication in those files is the primary DEFECT.RESEARCH-PROVIDER-PROSE-DRIFT site).
  • The install.js MCP tool-mapping for tavily, ref, and jina (those land where the agents declare the tools they need).

Known constraint: API context-editing primitives (clear_tool_uses, memory tool) are the conceptual model for context discipline, but they are not configurable through the Claude Code harness today. The current implementation achieves context discipline through subagent isolation and fetch-to-disk patterns.