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Research Assistant c15227076a backmatter: remove pre-ref disclosure normalization (pre-ref = body flow) 
Confirmed with user: pre-ref disclosure headings (CRediT, Ethics) must stay
as subsection_heading in body flow. Removed _normalize_pre_ref_disclosure_runs
and related constants/functions. Updated tests (20 -> 16 cases).

5 audit papers verified:
  25K5KZAQ: body_end=11 ref_start=10 (was None)
  YGH7VEX6: body_end=8 ref_start=8
  NC66N4Q3: body_end=56 ref_start=56 (was None)
  9TW98JH8: body_end=5 ref_start=5
  XD2BPCMG: body_end=26 ref_start=21

318/318 tests pass.
2026-06-28 01:28:53 +08:00
..
audit feat: figure-number inference for leading Figure 1 gaps 2026-06-26 21:13:24 +08:00
chaos test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
cli chore: update status JSON snapshot for legacy backfilled fields 2026-06-05 13:00:40 +08:00
e2e test: add legacy OCR backfill e2e smoke test procedure 2026-06-05 13:01:15 +08:00
fixtures fix: heading detection, backmatter, table consumed, footnote reorder, figure crop + audit fixtures 2026-06-22 01:28:55 +08:00
integration test(memory): add integration test for memory build/status workflow 2026-05-12 17:59:37 +08:00
journey test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
sandbox test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
unit backmatter: remove pre-ref disclosure normalization (pre-ref = body flow) 2026-06-28 01:28:53 +08:00
conftest.py test: update fixtures to {key}.md filename format (red phase) 2026-05-11 21:09:36 +08:00
test_asset_index.py feat: preserve user tags during sync 2026-05-31 20:01:16 +08:00
test_asset_index_integration.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
test_asset_state.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
test_base_preservation.py fix: minimal-intervention base sanitizer — dedup, fix syntax, preserve content, ensure 4 standard views 2026-06-01 13:05:18 +08:00
test_base_views.py feat: add ocr_time frontmatter field — tracks last OCR completion time, shown in 重做OCR view 2026-06-01 15:36:11 +08:00
test_cli_paths.py fix: VaultStep.__init__ missing step_id and checker in super() call 2026-04-27 19:49:36 +08:00
test_cli_worker_dispatch.py fix: CI dispatch tests — mock at SyncService level, restore --selection/--index flags 2026-05-09 22:42:53 +08:00
test_command_docs.py feat: stabilize paperforge query planning 2026-05-27 21:20:15 +08:00
test_config.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
test_context.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
test_discussion.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
test_doctor.py chore: rename PaperForge Lite -> PaperForge across 27 files 2026-04-28 01:25:51 +08:00
test_e2e_cli.py test: update fixtures to {key}.md filename format (red phase) 2026-05-11 21:09:36 +08:00
test_e2e_pipeline.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
test_legacy_ocr_backfill.py feat: add legacy OCR backfill-from-result rebuild path 2026-06-05 12:57:01 +08:00
test_legacy_worker_compat.py refactor(17-dead-code-precommit): remove delegation wrappers and dead code, run ruff cleanup 2026-04-27 17:40:47 +08:00
test_literature_hub_regressions.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
test_migration.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
test_ocr.py test: lock OCR phase5 role index contract 2026-06-05 12:11:51 +08:00
test_ocr_artifact_paths_config.py fix: route OCR artifact paths through configured OCR root 2026-06-04 23:50:20 +08:00
test_ocr_artifacts.py feat: wire OCR anchor artifacts 2026-06-09 21:56:23 +08:00
test_ocr_attachments.py feat: add OCR layered modules (roles, body spine, layout, attach) 2026-06-01 00:01:05 +08:00
test_ocr_blocks.py feat: drop non-preproof cover page 1 via positive cover markers 2026-06-22 01:47:00 +08:00
test_ocr_classify.py fix: VaultStep.__init__ missing step_id and checker in super() call 2026-04-27 19:49:36 +08:00
test_ocr_decisions.py feat: unify OCR decision statuses 2026-06-09 21:45:51 +08:00
test_ocr_doctor.py feat: surface legacy OCR backfill state in doctor and status diagnostics 2026-06-05 13:00:35 +08:00
test_ocr_document.py fix: harden early OCR frontmatter-side zone inference 2026-06-25 15:57:53 +08:00
test_ocr_emission_regressions.py feat: add OCR emission layer and regression tests 2026-06-01 00:01:39 +08:00
test_ocr_entrypoints.py style: ruff format after OCR role gate implementation 2026-06-12 15:11:33 +08:00
test_ocr_errors.py feat: classify OCR errors and degraded completions 2026-06-08 12:34:44 +08:00
test_ocr_evidence.py test: lock OCR phase5 evidence object contract 2026-06-05 12:14:18 +08:00
test_ocr_families.py feat: partition OCR families inside zones 2026-06-09 17:49:52 +08:00
test_ocr_figure_reader.py fix: govern local figure pairing and ownership fallbacks 2026-06-22 22:15:39 +08:00
test_ocr_figures.py feat: figure-number inference for leading Figure 1 gaps 2026-06-26 21:13:24 +08:00
test_ocr_health.py feat: add additive rebuild health semantics and batch documentation 2026-06-20 00:16:28 +08:00
test_ocr_high_risk_rule_audit.py feat: OCR risk convergence — scored figure/table matching, layout confidence, insert scorer, health uncertainty metrics 2026-06-08 13:43:48 +08:00
test_ocr_index.py test: lock OCR phase5 role index contract 2026-06-05 12:11:51 +08:00
test_ocr_integration_fixtures.py refactor: reorder OCR anchor-first pipeline 2026-06-10 12:35:45 +08:00
test_ocr_layout_first_regressions.py fix: preserve panel labels and figure_inner_text in post-reference backmatter zone 2026-06-17 22:36:51 +08:00
test_ocr_layout_zones.py fix: heading detection, backmatter, table consumed, footnote reorder, figure crop + audit fixtures 2026-06-22 01:28:55 +08:00
test_ocr_metadata.py fix: reuse rebuild metadata and object extraction work 2026-06-22 22:15:25 +08:00
test_ocr_objects.py fix: reuse rebuild metadata and object extraction work 2026-06-22 22:15:25 +08:00
test_ocr_pdf_spans.py feat: evidence-driven container admission rewrite 2026-06-26 22:50:15 +08:00
test_ocr_pdf_text_fallback.py fix: heading detection, backmatter, table consumed, footnote reorder, figure crop + audit fixtures 2026-06-22 01:28:55 +08:00
test_ocr_phase41_cleanup.py test: lock OCR phase4.1 runtime cleanup semantics 2026-06-05 12:08:14 +08:00
test_ocr_preflight.py fix: mock PADDLEOCR_API_TOKEN in ocr_preflight + skip doctor verdict on empty output 2026-05-09 18:16:36 +08:00
test_ocr_profiles.py feat: partition OCR families inside zones 2026-06-09 17:49:52 +08:00
test_ocr_reading_order_fixtures.py fix: use REPO_ROOT absolute path in fixture inventory test 2026-05-31 23:55:32 +08:00
test_ocr_real_paper_audit_contracts.py feat: complete OCR-v2 readiness gates + blind audit validation 2026-06-19 00:35:21 +08:00
test_ocr_real_paper_contract.py docs: classify env-driven tests as audit-only, legacy renderer tests as diagnostic 2026-06-13 16:41:38 +08:00
test_ocr_real_paper_reader_audit.py docs: classify env-driven tests as audit-only, legacy renderer tests as diagnostic 2026-06-13 16:41:38 +08:00
test_ocr_real_paper_regressions.py fix: harden early OCR frontmatter-side zone inference 2026-06-25 15:57:53 +08:00
test_ocr_rebuild.py fix: reuse rebuild metadata and object extraction work 2026-06-22 22:15:25 +08:00
test_ocr_redo.py test: lock OCR phase4 rebuild orchestration contract 2026-06-05 11:17:04 +08:00
test_ocr_render.py fix: ownership skip also matches str(block_id) for int/string alias 2026-06-25 23:08:07 +08:00
test_ocr_render_stabilization.py feat: convert body-zone footnotes with distinct font to callout 2026-06-22 01:51:10 +08:00
test_ocr_render_v2.py feat: OCR complex layout and sidebar detection overhaul 2026-06-07 21:35:57 +08:00
test_ocr_rendering.py fix: project table note bands through object and render 2026-06-20 02:19:23 +08:00
test_ocr_roles.py perf: simplify pre-ref backmatter to body classification, fix 3 residual bugs 2026-06-19 01:31:45 +08:00
test_ocr_route_audit.py docs: audit OCR production route and mark experimental modules 2026-06-08 12:13:07 +08:00
test_ocr_runtime_preflight.py feat: add OCR runtime preflight warnings for auto-rebuild 2026-06-05 11:03:22 +08:00
test_ocr_scores.py feat: tighten OCR figure validation matching 2026-06-09 21:13:53 +08:00
test_ocr_signatures.py fix: close OCR real-paper anchor-first regressions 2026-06-10 18:18:48 +08:00
test_ocr_spec_contracts.py test: add OCR-v2 spec-contract test suite 2026-06-13 17:21:15 +08:00
test_ocr_state_machine.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
test_ocr_structural_gate.py fix: heading detection, backmatter, table consumed, footnote reorder, figure crop + audit fixtures 2026-06-22 01:28:55 +08:00
test_ocr_synthetic_fixtures.py test: make OCR real-paper regressions reproducible 2026-06-08 12:13:11 +08:00
test_ocr_tables.py test: inventory contract for table note ownership 2026-06-25 22:29:30 +08:00
test_ocr_trace_vs_expectations.py test: add real-paper trace vs expectations regression harness with fixtures 2026-06-13 19:27:38 +08:00
test_ocr_truth_surface_docs.py test: add OCR truth surface doc contract guard 2026-06-19 23:21:02 +08:00
test_ocr_v2_contract_audit.py style: ruff format after OCR role gate implementation 2026-06-12 15:11:33 +08:00
test_ocr_v2_structural_regressions.py fix: close OCR v2 real-paper structural, object, and render gaps 2026-06-12 17:41:57 +08:00
test_ocr_versions.py test: lock OCR phase4 version state contract 2026-06-05 11:08:13 +08:00
test_paper_context_evidence.py test: lock OCR phase5 evidence object contract 2026-06-05 12:14:18 +08:00
test_pdf_resolver.py fix: add creators/extra to load_export_rows row dict, fix journal key lookup for first_author/journal/IF in library-records; add first_author, journal, impact_factor columns to Base views; fix PDF storage/ subdirectory resolution 2026-04-27 20:25:35 +08:00
test_pf_bootstrap_capabilities.py feat: stabilize paperforge query planning 2026-05-27 21:20:15 +08:00
test_plugin_install_bootstrap.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
test_prepare_rollback.py test: update fixtures to {key}.md filename format (red phase) 2026-05-11 21:09:36 +08:00
test_query_command_diagnostics.py feat: stabilize paperforge query planning 2026-05-27 21:20:15 +08:00
test_query_plan.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
test_repair.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
test_retrieve_evidence.py feat: add OCR evidence-aware query routing for phase5 2026-06-05 12:22:15 +08:00
test_search_command_diagnostics.py feat: add OCR evidence-aware query routing for phase5 2026-06-05 12:22:15 +08:00
test_second_pass_cross_validation.py feat: second-pass cross-validation for low-confidence role assignments using span profiles 2026-06-06 11:27:44 +08:00
test_selection_sync_pdf.py refactor: preserve OCR compatibility through renderer v2 2026-06-05 10:42:20 +08:00
test_setup_wizard.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
test_skill_graph_contracts.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
test_skill_graph_layout.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
test_smoke.py fix: v1.4.17rc2 — OCR quote fix, 4-stage lifecycle, .env fallback, Codex support, deep-reading anchors, auto-update pip 2026-05-08 01:26:04 +08:00
test_status.py feat: surface legacy OCR backfill state in doctor and status diagnostics 2026-06-05 13:00:35 +08:00
test_sync.py feat: ocr reading-order fixes, single-source fulltext, redo closed-loop, release notes & manual 2026-06-01 18:12:31 +08:00
test_sync_service_ocr_versions.py test: lock legacy OCR classification contract 2026-06-05 12:52:43 +08:00
test_utils_journal.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
test_utils_json.py docs(v1.4): commit planning artifacts, test files, and phase summaries for phases 13-19 2026-04-27 19:12:03 +08:00
test_utils_slugify.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00
test_utils_yaml.py test: lock OCR phase2 figure inventory contract 2026-06-05 00:08:30 +08:00