feat: classify Zotero research snapshot - #9
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Add a bounded read-only Local API intake that proposes evidence-backed dispositions, links child records, and surfaces reversible duplicate candidates without mutating Zotero. Signed-off-by: Seongho Bae <me@seonghobae.me>
📝 WalkthroughWalkthrough새 ChangesZotero 연구 수집 및 분류
Estimated code review effort: 4 (Complex) | ~45 minutes Sequence Diagram(s)sequenceDiagram
participant Steward
participant ZoteroLocalAPI
participant conceptweave-zotero
participant LocalJSONReport
Steward->>conceptweave-zotero: 출력 경로로 CLI 실행
conceptweave-zotero->>ZoteroLocalAPI: 버전 헤더가 있는 페이지 요청
ZoteroLocalAPI-->>conceptweave-zotero: 항목 페이지 반환
conceptweave-zotero->>conceptweave-zotero: 스냅샷 검증 및 항목 분류
conceptweave-zotero->>LocalJSONReport: 제안과 증거를 JSON으로 저장
Steward->>LocalJSONReport: 처분 제안과 중복 후보 검토
Merge Risk: 🟡 Moderate · up to Large snapshots can exhaust resources, reports can accidentally enter version control, and generated review data can lose required provenance or duplicate matches. These issues should be corrected before merge. 🚥 Pre-merge checks | ✅ 3 | ❌ 2❌ Failed checks (2 warnings)
✅ Passed checks (3 passed)
Full details: Docstring CoverageExplanation Docstring coverage is 57.89% which is insufficient. The required threshold is 80.00%. Docstring coverage is scoped to functions touched by this diff. Analyzed 19 functions across 2 files. (10 skipped: 10 unsupported.)
✨ Finishing Touches 💡 1📝 Generate docstrings 💡
🧪 Generate unit tests (beta)
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Prevent ontology abbreviations from matching inside unrelated words and refresh the live aggregate baseline from the corrected report. Signed-off-by: Seongho Bae <me@seonghobae.me>
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Actionable comments posted: 4
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Inline comments:
In `@crates/conceptweave-zotero/src/lib.rs`:
- Around line 107-109: ClassifiedItem에 결정적인 abstention_reason 필드를 추가하고,
NeedsStewardReview를 생성하는 모든 경로에서 빈 메타데이터·지원되지 않는 내용·결정적 규칙 미일치 사유를 구분해 설정하십시오.
기존 proposed_disposition 및 evidence 동작은 유지하고, 연구 수집 계약에 따라 해당 사유가 결과에 보존되도록 하십시오.
- Around line 462-464: Update the DOI normalization prefix handling in the
visible strip_prefix chain to also remove both http://dx.doi.org/ and
https://dx.doi.org/ prefixes, preserving the existing normalization behavior for
bare DOI values and current doi.org forms.
In `@docs/adr/0006-zotero-research-intake.md`:
- Line 12: Restrict report output paths to locations outside the repository
before any File::create call, rejecting repository-internal paths and symlinks
that resolve into the repository. If the intended policy is to allow only /tmp,
explicitly document and enforce that policy in the CLI validation flow.
In `@docs/TRD.md`:
- Line 62: read_local_snapshot에 전체 스냅샷의 item 수와 응답 바이트 누적 상한을 추가하세요. 다음 요청을 보내기
전과 page를 items에 extend하기 전에 예산 초과 여부를 검사하고, 초과 시 ReadError로 즉시 종료하세요. 페이지 단위 제한과
기존 Total-Results 제어는 유지하세요.
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⛔ Files ignored due to path filters (1)
Cargo.lockis excluded by!**/*.lock
📒 Files selected for processing (12)
Cargo.tomlREADME.mdcrates/conceptweave-zotero/Cargo.tomlcrates/conceptweave-zotero/src/lib.rscrates/conceptweave-zotero/src/main.rsdocs/PRD.mddocs/TRD.mddocs/UML.mddocs/adr/0006-zotero-research-intake.mddocs/adr/README.mddocs/doctoring/RESEARCH_CAPABILITY_TRACEABILITY.mddocs/product-technical-gap-baseline.md
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| impl std::error::Error for ReadError {} | ||
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| /// Reads every Zotero item from one stable Local API library version. | ||
| #[cfg_attr(coverage_nightly, coverage(off))] |
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This coverage(off) attribute removes the entire production Local API reader—including pagination, header consistency, size-limit, and timeout paths—from LLVM coverage, allowing the 100% gate to pass without exercising the code that establishes snapshot immutability. Introduce an injectable or mock HTTP boundary and cover these branches instead of masking them.
AGENTS.md reference: AGENTS.md:L21-L21
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Fresh exact-head recheck reopened this previously resolved P1 because the current production Local API transport is still masked from the owned-coverage gate. At pre-RED head 943d7495b89c330df109414b547bb097d24ec6ee, fetch_local_page, header_u64, header_string, and optional_header each still carry #[cfg_attr(coverage_nightly, coverage(off))], even though the existing loopback metadata_transport suite reaches read_local_snapshot() through the real production adapter for API-version headers, response limits, proxy isolation, body errors, and now provider-shaped Zotero object-key admission. AGENTS.md still requires owned production line/function/region/branch coverage at 100%, so leaving already-testable production parsing/contract code excluded is not a justified raw network shim boundary.
Committed reality RED 2e0be0902d48034cf130efb1b1bab27705a7f06b adds production_transport_helpers_remain_in_owned_coverage to the existing internal transport test module. It fails by source contract while any of those four production helpers remains annotated coverage(off). This test does not relax runtime behavior or fabricate coverage; it only prevents the coverage gate from silently masking the provider ACL/header parsing seam.
Minimal causal repair: remove the four coverage(off) annotations from these already-loopback-testable helpers, then add/retain explicit loopback cases for success and each exposed header/body branch until one unchanged exact successor passes Rust 1.98 workspace tests, fmt, all-target Clippy, warnings-denied rustdoc/release, and owned function/normalized-region/branch 100% coverage plus applicable hosted checks. Keep any truly unavoidable raw process/host-discovery shell narrower and separately justified. No Zotero mutation, semantic authority change, or gate weakening is part of this repair. Thread remains unresolved.
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Source/test repair now follows the committed reality RED by ordinary ancestry. Minimal production commit c47947579c947f3426d89601eee93c80ca9ce018 removes exactly the four coverage(off) annotations from fetch_local_page, header_u64, header_string, and optional_header; its diff is one file and four deletions, with Local API request/response/classification behavior unchanged. Test successor b9db5557fecae9b4998dc006b3ebf297f5e6da77 adds real-loopback missing/malformed required-header cases, optional server-ID absence, malformed JSON propagation, and direct present/missing/malformed/opaque header-helper boundaries. Doctoring successor b1d1dd9ce51cc77d44cc8397450064fff4bba33d records the RED→repair→branch-test lineage and preserves the 100% owned function/normalized-region/branch acceptance gate.
I am keeping this P1 unresolved. This establishes causal source/test repair, not executable GREEN: the current environment has no Rust toolchain and one unchanged exact successor still must pass locked Rust 1.98 workspace tests, fmt, all-target Clippy, warnings-denied rustdoc/release, owned 100% function/normalized-region/branch coverage and applicable hosted checks. Any newly exposed coverage gap should be repaired with a deterministic regression rather than restoring an exclusion.
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Keep the runnable example aligned with the reviewed output confinement on macOS and other supported systems. Signed-off-by: Seongho Bae <me@seonghobae.me>
Accept both canonical temp roots on macOS, preserve create-new confinement, cover all budget edges, and deduplicate coverage by source coordinates across test binaries. Signed-off-by: Seongho Bae <me@seonghobae.me>
Signed-off-by: Seongho Bae <me@seonghobae.me>
Exact-head serialization coverage follow-up —
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Exact-head platform coverage repair —
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Owner-path finding for Research Intake: #41 records a provenance gap in the current |
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#41 owner-path checkpoint remains exact Fresh exact-source inspection confirms no causal repair has landed: The #9 repair must seal the constructor-bound source-resolution trust projection before equality admission, preserve read-only/JSON consumers, and avoid a reissuable post-mutation receipt or second provenance authority. Issue #41 carries the current implementation constraint and exact downstream state. Concurrent downstream progress was adopted normally. #40 reached local exact-head GREEN at |
Keep report identity and inventory constructor-bound while preserving read-only access and the serialized JSON shape. BREAKING CHANGE: ClassificationReport fields are private; consumers must use immutable getter methods. Refs: #41 Signed-off-by: Seongho Bae <me@seonghobae.me> Commit-Message-Assisted-by: Claude (via Claude Code)
Record the executed RED-to-source-repair checkpoint, retain the coverage deficit as an explicit readiness gap, and preserve the reusable constructor-bound aggregate lesson. Signed-off-by: Codex <codex@openai.com> Commit-Message-Assisted-by: Claude (via Claude Code)
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Issue #41 owner repair is now in ordinary ancestry at exact head
Pinned Rust 1.98 workspace check/tests, fmt, strict all-target/all-feature Clippy, warnings-denied rustdoc, release build, focused provenance/source-resolution tests, and diff checks pass. Coverage remains RED and is not hidden: raw functions 190/195, regions 2,789/2,841, branches 155/160; normalized regions 1,130/1,187 and branches 159/160. Keep Draft and repair the exact owner coverage deficit before readiness. PR #40 must consume this breaking getter contract by ordinary non-force restack. |
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Current-head review: the #41 provenance source repair is present, but exact acceptance is still RED/pending because the repaired ClassificationReport head has not yet demonstrated owned-production 100% coverage after the API migration. This successor promotes the mature gap diagnostics/scope gate from the dependent lane into canonical Research Intake: raw zero-count LLVM function identities are reported, normalized source functions are checked in addition to the unchanged native 100% function gate, and branch normalization is bound to owned non-test source regions with an executable keep/exclude fixture. No threshold, target, or coverage(off) relaxation is introduced. Keep Draft and keep existing valid review threads unresolved. Run the frozen nightly coverage on this unchanged head or a normal successor, repair only the emitted owner gaps, then require locked Rust 1.98 workspace/fmt/all-target strict Clippy/warnings-denied rustdoc+release/coverage plus hosted checks and qualifying independent review before Ready or downstream #40 restack.
Signed-off-by: Seongho Bae <me@seonghobae.me>
Signed-off-by: Seongho Bae <me@seonghobae.me>
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Visual Inspection — exact PR head I opened the live GitHub PR conversation in the in-app browser and inspected the rendered screenshot. The Draft badge, latest checkpoint heading, exact head/source SHAs, coverage figures (195/195 native functions; 106/106 normalized functions; 1,187/1,187 regions; 78/78 branches), and authority boundary render without literal escape sequences, truncation, overlap, or malformed Markdown in the visible desktop state. Scope: GitHub PR conversation at desktop width. This does not inspect private Zotero content, mobile/responsive states, hidden historical comments, hosted job details, or product UI; none is claimed. |
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Fresh exact-head review at 0c935d805f01cdf548156743c20544ab4596f8c3: the current PR checkpoint now records one unchanged local head through locked Rust 1.98 workspace tests, fmt, strict all-target/all-feature Clippy, warnings-denied rustdoc/release, and frozen owned coverage (native functions 195/195; normalized owned functions 106/106, regions 1,187/1,187, branches 78/78). I also rechecked GitHub hosted state for this exact SHA: pull-request workflow runs remain 0, and the only combined status is CodeRabbit success with Review skipped: draft pull request. No qualifying independent exact-head approval is present.
Accordingly, the earlier source/test findings that were held open solely for the local Rust/coverage portion have advanced from PENDING_EXECUTION to local exact-head GREEN, but their acceptance gate is still incomplete where it explicitly requires applicable hosted checks/independent review. Keep Draft and do not resolve those acceptance threads yet.
One downstream repair is now required: #40 still points at the prior Research Intake base 0e3ea46... and GitHub currently reports it non-mergeable after this owner branch advanced through 9d2c7d... -> 0c935d8.... Its earlier 229/229 local coverage evidence predates this owner delta. Restack/adapt #40 normally and non-force, preserving its source-resolution contracts while retaining or explicitly superseding the new #9 cleanup/coverage changes; only then re-run exact-head gates. This review does not approve, publish, mutate Zotero, or transfer predecessor evidence.
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Current-head successor audit: all open review findings remain attached to this predecessor SHA, so they are not resolved here. The direct successor owner is PR #40 at |
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Current-head restack verification: a67d9d66b35024d6f2155f50ee5c9fb7d2e1dbe9 is mergeable on Foundation 60f14a6...; ordinary merge 18dfe139... preserves the former Research Intake source/test ancestry while adopting the Foundation baseline, and the prior baseline is retained as historical evidence instead of being silently discarded. No production source regression is introduced by this docs successor. COMMENT only: this exact head has no pull-request workflow run, and predecessor 0c935d8... Rust/coverage GREEN does not transfer after movement. Keep Draft pending fresh exact-current execution, hosted checks, and qualifying independent review.
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Fresh dependent-propagation update while this #9 head remains unchanged: #40 is now exact The semantic evidence repair remains bounded: Oxigraph No predecessor executable evidence transfers to #40 |
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2026-09-10 live coordination update: central required run No #9 source/execution evidence changes: exact head remains |
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Dependent-stack finding: current #9 remains the canonical Research Intake parent, but #10 fdf8b8d70c05bcb76c55cb6336c9bf31b5e42ce4 still has historical merge base 51c7df6d03f072449422fd58ca24b2f9d6026f07. Fresh compare against this exact #9 head is diverged: #10 is 35 commits ahead and 81 behind, and GitHub reports #10 non-mergeable. #10 review 5158471700 requires ordinary non-force semantic reconciliation while preserving every valid golden-set source/test/fixture/docs delta; #11 review 5158473210 keeps descendants open until that repaired parent exists.
No #9 source repair is implied by this finding. Keep a67d9d66... stable and do not reverse-merge #10 into the parent, flatten descendants, close them, or transfer the historical #9/#10 execution evidence. After the repaired #10 successor exists, descendant restacks and exact-head verification proceed forward only.
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P1 coordination-authority finding on exact Research Intake a67d9d66b35024d6f2155f50ee5c9fb7d2e1dbe9: Current upstream owner gate is stale. It still pins #35 to 22709ec9..., protected central .github/main to historical 7fd571db..., treats #2040 as Ready/current protected-relative authority, and does not carry the now-confirmed #2051 default-branch handler bootstrap defect. Live protected central truth is cb0872c9a20d5584703dffacca65c096fc034c6c; unchanged #35 is 9bb82f041483cb4e0cf1aa1f5450b413309f9a05; #2040 and #2051 remain historical-base/diverged, and #2056 is Draft. Repair only PR authority metadata. Do not move Research Intake source or transfer historical Rust/coverage evidence. The correct dependency order is versioned backward-compatible protected handler -> non-force #2051/#2056 current-main reconciliation -> exact central GREEN/review -> unchanged-head #35 acceptance -> normal #35 integration -> fresh Research Intake acceptance.
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Exact-current follow-up on Research Intake a67d9d66b35024d6f2155f50ee5c9fb7d2e1dbe9: review 5168681194 is repaired in PR authority metadata without moving source. The upstream gate now pins unchanged #35 9bb82f041483cb4e0cf1aa1f5450b413309f9a05, protected central .github/main@cb0872c9a20d5584703dffacca65c096fc034c6c, historical-base/diverged #2040 and #2051 at 32 commits behind current protected truth, and #2056 as OPEN Draft/mergeable. It also records the protected-default-branch repository_dispatch bootstrap defect and the versioned backward-compatible handler-first rollout. This is coordination-metadata GREEN only; a67d9d66... still needs fresh native/hosted/review acceptance and no historical Rust/coverage evidence is transferred.
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Coordination authority update: the body paragraph describing #10 as fdf8b8d... stale/non-mergeable is now superseded. Golden-set #10 ordinary/non-force adopted this exact #9 head via two-parent commit c9954e286041c80d08655e092f10007a684ceab1 and is now exact 865e3d569c814fdd3b18d6f4402d2ec9bfd2f3ef, OPEN / Draft / mechanically mergeable at STALE_PARENT_REPAIRED / AGGREGATE_COMPATIBILITY_REPAIRED / ACCEPTANCE_PENDING. Current #9 ClassificationReport encapsulation and public ZoteroItem { key, version, data } contract were preserved. Do not pull #10 backward into #9; wait for #10 unchanged-head Rust/hosted/review acceptance, then continue descendant propagation in stack order.
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Current Research Intake authority — 2026-09-14 KST
Exact head
a67d9d66b35024d6f2155f50ee5c9fb7d2e1dbe9on Foundation60f14a6e85a83d56c2eea43b34d52b3366bb1735; OPEN / Draft / mechanically mergeable.ClassificationReportremains private and constructor-bound with read-only accessors. PublicZoteroItemremains{ key, version, data }. Classification/report serialization is proposal evidence only and grants no semantic authority, steward approval, Zotero mutation or publication authority.Foundation reconciliation remains ordinary/non-force: merge
18dfe1397b7bc665b3259fa938da1aeebe4c0a86preserved the Research Intake lineage and adopted current Foundation. Owner repair9d2c7d612d9b4f38f350720a9e3f2558aa655278keeps test-only Local API endpoint selection outside measured production, normalizes cfg-varying coverage identity without collapsing distinct functions, and preserves both primary publication failure and exact cleanup failure. Pre-restack Rust/coverage evidence is historical only; this exact head still requires fresh unchanged-head Rust 1.98, hosted checks and qualifying independent review.Product / central prerequisites
ConceptWeave protected/default
mainremainsf4f440dd58c77d7cd90dff8a1eb2eeb9a9940425. Product bootstrap #35 remains exact9bb82f041483cb4e0cf1aa1f5450b413309f9a05, OPEN / Ready; the repository-owned Product pull-request workflow is not yet on protected main.Protected
.github/mainis828eaaefb0cc97bba4da63eb9270447476d26710. Central CodeQL handler #2106 is exact1ba96e4ddf6a800435651ec1c49acff533242fd9; review-repair #2170 isae0f2f57f1d2abda7bb2e7ac9ce3bf8f1cac6f39; Noema owner #2079 is6d7e833224e06b4316df3d6bbdfcb4658e151956. #2170's Agent Review Runtime Quality CI is now exact-head success, while its CodeQL/Security/Python Security/Semgrep generation remains queued. Central acceptance remains pending and none of that evidence transfers to Research Intake.Golden-set propagation
Golden-set #10 ordinary/non-force adopted this exact #9 head through two-parent commit
c9954e286041c80d08655e092f10007a684ceab1. Its current successor is exact6aa1d39512cbbf9d37df518f4109d0e69eef0689, OPEN / Draft / mechanically mergeable at STALE_PARENT_REPAIRED / AGGREGATE_COMPATIBILITY_REPAIRED / CAPTURE_PROVENANCE_REPAIRED / ACCEPTANCE_PENDING.#10 preserves this PR's private trusted aggregate and three-field
ZoteroItem. Fresh review5192398634corrected an authority overclaim in the child: publicCapturedZoteroItem::try_from(Value)binds caller-supplied raw JSON but cannot authenticate provider origin. RED67b5214...and production2e529727...replace the provider-labelled raw receipt withconceptweave-zotero-captured-json-snapshot-v3; typed fixtures remain distinct and proposal identity remains v3. Genuine provider-origin evidence belongs at a transport-owned attestation boundary that actually observes the source. Do not pull that concern backward into #9's trusted aggregate or Local API contract by copying child source.#10 currently has no repository-owned PR workflow generation on its exact head and this execution environment has no Rust toolchain, so child source repair is not acceptance. #10 must obtain unchanged-head Rust/hosted/review evidence before #11 or later descendants ordinary/non-force adopt it. Do not transfer predecessor evidence.
Merge gate
Keep Draft. Require one unchanged current #9 head with repository-pinned Rust 1.98 workspace tests, fmt, strict all-target/all-feature Clippy, warnings-denied rustdoc/release, owned-production 100% doc/test/edge coverage, applicable hosted checks, qualifying independent review and zero valid unresolved findings after upstream protected prerequisites. No force push, destructive rebase, self-approval, review dismissal, fail-open substitution, mutable supplier dependency, no-op trigger, synthetic status, Zotero live mutation, premature semantic publication or release.