{"quest":{"id":"adc94873-2cd","name":"Search","description":"Universal search across all SciDEX content with autocomplete","layer":"Cross-cutting","priority":95,"status":"active","created_at":"2026-04-02T10:00:57.209491+00:00","updated_at":"2026-04-02T10:00:57.209491+00:00"},"tasks":[{"id":"3a897f8a-0712-4701-a675-07f0670d8f87","title":"[Search] CI: Verify search indexes are current","description":"Rebuild theme S3 (FTS/vector index coverage verification). SPEC: docs/planning/specs/rebuild_theme_S3_search_index_coverage_spec.md. Template: docs/planning/specs/rebuild_theme_template_spec.md. Principles: docs/design/retired_scripts_patterns.md. Self-describing via pg_indexes introspection — no hardcoded index list. LLM only on rebuild-failure remediation. All other requirements from rebuild template.","status":"open","priority":90,"frequency":"daily","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-27T06:16:51.639846+00:00","updated_at":"2026-04-27T06:16:51.639846+00:00","summary":"","completion_summary":"All search indexes are verified current. Here is today's verification summary:","completion_notes":"Auto-release: recurring task had no work this cycle","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"docs/planning/specs/3a897f8a_071_spec.md","provider":"any","payload_json":"{\"requirements\": {\"coding\": 7, \"reasoning\": 6}, \"auto_tagged_at\": \"2026-04-03T22:29:52.510355\", \"completion_shas\": [\"5e558beb579108ba09160d969e61e8d5e8005664\"], \"completion_shas_checked_at\": \"2026-04-12T18:02:34.524427+00:00\", \"completion_shas_missing\": [\"9228d4795b98e4f36964ffe46f3b7917de61bcf0\", \"9dfd06fddb421e742946a6ec6543ec3f82c4e6db\", \"f71f42dac02f6353a85b281f26933fa7d8166922\", \"e9711749c37b3da33498ec00d78ea41c94d010f2\", \"67f964b1660e5ea92c53dda02fbf454ea5c7afb2\", \"dfff514492c0bca84fa887ec942a1be5044ee67c\", \"7d5ab1c6a59d257d31fde6d4f3da74041024eec4\", \"d76ddce827fdb58d27fbb13f209d7fbc883297aa\", \"66975071179c72e690e62ed4b23b9909a2326f3a\", \"2317e1867996e83267fb985d9622d38712fa78f7\", \"65c978214fbdeba6f10cc2189e96bbb7c3c800ef\"]}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":"pass","verification_notes":"All search indexes are verified current. Here is today's verification summary:","task_type":"recurring","pr_links":[],"commit_links":[]},{"id":"8c3eb862-14df-4e69-bfc4-7e2739e859da","title":"[Search] Fix /api/search taking 5s — optimize FTS5 queries","description":"\n\n\n## REOPENED TASK — CRITICAL CONTEXT\n\nThis task was previously marked 'done' but the audit could not verify\nthe work actually landed on main. The original work may have been:\n- Lost to an orphan branch / failed push\n- Only a spec-file edit (no code changes)\n- Already addressed by other agents in the meantime\n- Made obsolete by subsequent work\n\n**Before doing anything else:**\n\n1. **Re-evaluate the task in light of CURRENT main state.** Read the\n   spec and the relevant files on origin/main NOW. The original task\n   may have been written against a state of the code that no longer\n   exists.\n\n2. **Verify the task still advances SciDEX's aims.** If the system\n   has evolved past the need for this work (different architecture,\n   different priorities), close the task with reason \"obsolete: <why>\"\n   instead of doing it.\n\n3. **Check if it's already done.** Run `git log --grep='<task-id>'`\n   and read the related commits. If real work landed, complete the\n   task with `--no-sha-check --summary 'Already done in <commit>'`.\n\n4. **Make sure your changes don't regress recent functionality.** Many\n   agents have been working on this codebase. Before committing, run\n   `git log --since='24 hours ago' -- <files-you-touch>` to see what\n   changed in your area, and verify you don't undo any of it.\n\n5. **Stay scoped.** Only do what this specific task asks for. Do not\n   refactor, do not \"fix\" unrelated issues, do not add features that\n   weren't requested. Scope creep at this point is regression risk.\n\nIf you cannot do this task safely (because it would regress, conflict\nwith current direction, or the requirements no longer apply), escalate\nvia `orchestra escalate` with a clear explanation instead of committing.\n","status":"done","priority":96,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-13T19:54:14.635797+00:00","updated_at":"2026-04-13T19:54:14.635797+00:00","summary":"","completion_summary":"[Search] Close 8c3eb862: FTS5 BM25 already on main, sub-500ms confirmed [task:8c3eb862-14df-4e69-bfc4-7e2739e859da]","completion_notes":"Auto-completed by supervisor after successful deploy to main","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"docs/planning/specs/8c3eb862_14d_spec.md","provider":"any","payload_json":"{\"completion_shas\": [\"2f416fc29ba48c8593696afcc4babec8b2c177f7\"], \"completion_shas_checked_at\": \"2026-04-13T19:54:14.615777+00:00\", \"completion_shas_missing\": [\"20b8aabf166f35220de0c80d61bb7f76270cde0c\", \"0a163dd2a5ad5d5edb11f1b08ae7f62e4fe73c9c\", \"2c4b87dd2b0aceb78cdc01b619cf261c3495e808\"]}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"da200fbd-27ee-47f4-b4c6-9cd896785350","title":"[Search] Design and implement vector search infrastructure with embeddings","description":"Create a vector search subsystem for SciDEX that indexes ALL content types:\n- Wiki pages (17K+), hypotheses, KG nodes/edges, papers, analyses, debates, skills\n- Use a vector database (ChromaDB or FAISS) for semantic search via embeddings\n- Generate embeddings for all existing content and set up incremental indexing\n- Create /api/search endpoint that accepts queries and returns ranked results across all types\n- Results should be grouped by type (wiki, hypothesis, graph node, paper, analysis, etc.)\n- Support both semantic (vector) and keyword (full-text) search, combining scores\n- Reference NeuroWiki search and wiki.js for inspiration on search UX patterns\n- Ensure indexes are kept up to date as new content is added (post-analysis hook, etc.)\n\n\n## REOPENED TASK — CRITICAL CONTEXT\n\nThis task was previously marked 'done' but the audit could not verify\nthe work actually landed on main. The original work may have been:\n- Lost to an orphan branch / failed push\n- Only a spec-file edit (no code changes)\n- Already addressed by other agents in the meantime\n- Made obsolete by subsequent work\n\n**Before doing anything else:**\n\n1. **Re-evaluate the task in light of CURRENT main state.** Read the\n   spec and the relevant files on origin/main NOW. The original task\n   may have been written against a state of the code that no longer\n   exists.\n\n2. **Verify the task still advances SciDEX's aims.** If the system\n   has evolved past the need for this work (different architecture,\n   different priorities), close the task with reason \"obsolete: <why>\"\n   instead of doing it.\n\n3. **Check if it's already done.** Run `git log --grep='<task-id>'`\n   and read the related commits. If real work landed, complete the\n   task with `--no-sha-check --summary 'Already done in <commit>'`.\n\n4. **Make sure your changes don't regress recent functionality.** Many\n   agents have been working on this codebase. Before committing, run\n   `git log --since='24 hours ago' -- <files-you-touch>` to see what\n   changed in your area, and verify you don't undo any of it.\n\n5. **Stay scoped.** Only do what this specific task asks for. Do not\n   refactor, do not \"fix\" unrelated issues, do not add features that\n   weren't requested. Scope creep at this point is regression risk.\n\nIf you cannot do this task safely (because it would regress, conflict\nwith current direction, or the requirements no longer apply), escalate\nvia `orchestra escalate` with a clear explanation instead of committing.\n","status":"done","priority":95,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-14T13:27:15.128069+00:00","updated_at":"2026-04-14T13:27:15.128069+00:00","summary":"","completion_summary":"[Search] Add /api/search/stats endpoint for index statistics [task:da200fbd-27ee-47f4-b4c6-9cd896785350]; [Search] Fix undefined 'sem_types' variable in /api/search - enables semantic search with type filters [task:da200fbd-27ee-47f4-b4c6-9cd896785350]","completion_notes":"Auto-completed by supervisor after successful deploy to main","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{\"_stall_skip_providers\": [], \"_stall_requeued_by\": \"minimax\", \"_stall_requeued_at\": \"2026-04-13 21:19:15\", \"_stall_skip_at\": {}, \"_stall_skip_pruned_at\": \"2026-04-14T10:37:14.022390+00:00\", \"completion_shas\": [\"d833c9f2946845f1962449ddbb24734886f36fea\", \"b8fb73a9fccdb29ebc33860902ecfb0c9465bd7b\"], \"completion_shas_checked_at\": \"2026-04-14T13:27:15.109408+00:00\"}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"512d8d01-f5a5-41bf-a9f1-df56a26ef4fa","title":"[Search] Rebuild search indexes and verify cross-type search quality","description":"IMPORTANT: Before implementing, verify this work hasn't already been done. Check api.py routes, git log, and the live site. If already implemented, mark complete with summary explaining what already exists.\n\nEnsure FTS indexes are current for all content types. Test queries that span hypotheses, papers, wiki, and experiments.\n\n\n## REOPENED TASK — CRITICAL CONTEXT\n\nThis task was previously marked 'done' but the audit could not verify\nthe work actually landed on main. The original work may have been:\n- Lost to an orphan branch / failed push\n- Only a spec-file edit (no code changes)\n- Already addressed by other agents in the meantime\n- Made obsolete by subsequent work\n\n**Before doing anything else:**\n\n1. **Re-evaluate the task in light of CURRENT main state.** Read the\n   spec and the relevant files on origin/main NOW. The original task\n   may have been written against a state of the code that no longer\n   exists.\n\n2. **Verify the task still advances SciDEX's aims.** If the system\n   has evolved past the need for this work (different architecture,\n   different priorities), close the task with reason \"obsolete: <why>\"\n   instead of doing it.\n\n3. **Check if it's already done.** Run `git log --grep='<task-id>'`\n   and read the related commits. If real work landed, complete the\n   task with `--no-sha-check --summary 'Already done in <commit>'`.\n\n4. **Make sure your changes don't regress recent functionality.** Many\n   agents have been working on this codebase. Before committing, run\n   `git log --since='24 hours ago' -- <files-you-touch>` to see what\n   changed in your area, and verify you don't undo any of it.\n\n5. **Stay scoped.** Only do what this specific task asks for. Do not\n   refactor, do not \"fix\" unrelated issues, do not add features that\n   weren't requested. Scope creep at this point is regression risk.\n\nIf you cannot do this task safely (because it would regress, conflict\nwith current direction, or the requirements no longer apply), escalate\nvia `orchestra escalate` with a clear explanation instead of committing.\n","status":"done","priority":93,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-16T01:28:31.246553+00:00","updated_at":"2026-04-16T01:28:31.246553+00:00","summary":"","completion_summary":"[Search] Update spec work log [task:512d8d01-f5a5-41bf-a9f1-df56a26ef4fa]; [Search] Fix CI verify script - use scidex.atlas.rebuild_fts, add knowledge_gaps_fts and notebooks_fts [task:512d8d01-f5a5-41bf-a9f1-df56a26ef4fa]","completion_notes":"Auto-completed by supervisor after successful deploy to main","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{\"requirements\": {\"coding\": 8, \"reasoning\": 8, \"analysis\": 8}, \"_stall_skip_providers\": [], \"_stall_requeued_by\": \"minimax\", \"_stall_requeued_at\": \"2026-04-14 05:27:20\", \"_stall_skip_at\": {}, \"_stall_skip_pruned_at\": \"2026-04-14T10:37:14.022390+00:00\", \"completion_shas\": [\"5ef94d65eb320360307ca67219875f989156fa4a\"], \"completion_shas_checked_at\": \"2026-04-16T01:28:31.192562+00:00\"}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":"pass","verification_notes":"[Search] Update spec work log [task:512d8d01-f5a5-41bf-a9f1-df56a26ef4fa]; [Search] Fix CI verify script - use scidex.atlas.rebuild_fts, add knowledge_gaps_fts and notebooks_fts [task:512d8d01-f5a5-41bf-a9f1-df56a26ef4fa]","task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"f557e9ea-4f23-40c0-a165-27deeaf5fbec","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify /search page retrieves and displays results across all content types: hypotheses, analyses, wiki pages, entities, experiments, gaps, papers. Fix any missing content types. The page loads (200) but coverage of all types needs verification.\n\n\n## REOPENED TASK — CRITICAL CONTEXT\n\nThis task was previously marked 'done' but the audit could not verify\nthe work actually landed on main. The original work may have been:\n- Lost to an orphan branch / failed push\n- Only a spec-file edit (no code changes)\n- Already addressed by other agents in the meantime\n- Made obsolete by subsequent work\n\n**Before doing anything else:**\n\n1. **Re-evaluate the task in light of CURRENT main state.** Read the\n   spec and the relevant files on origin/main NOW. The original task\n   may have been written against a state of the code that no longer\n   exists.\n\n2. **Verify the task still advances SciDEX's aims.** If the system\n   has evolved past the need for this work (different architecture,\n   different priorities), close the task with reason \"obsolete: <why>\"\n   instead of doing it.\n\n3. **Check if it's already done.** Run `git log --grep='<task-id>'`\n   and read the related commits. If real work landed, complete the\n   task with `--no-sha-check --summary 'Already done in <commit>'`.\n\n4. **Make sure your changes don't regress recent functionality.** Many\n   agents have been working on this codebase. Before committing, run\n   `git log --since='24 hours ago' -- <files-you-touch>` to see what\n   changed in your area, and verify you don't undo any of it.\n\n5. **Stay scoped.** Only do what this specific task asks for. Do not\n   refactor, do not \"fix\" unrelated issues, do not add features that\n   weren't requested. Scope creep at this point is regression risk.\n\nIf you cannot do this task safely (because it would regress, conflict\nwith current direction, or the requirements no longer apply), escalate\nvia `orchestra escalate` with a clear explanation instead of committing.\n","status":"done","priority":93,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-16T01:23:09.218684+00:00","updated_at":"2026-04-16T01:23:09.218684+00:00","summary":"","completion_summary":"[Search] Update spec work log - verify gap search working [task:f557e9ea-4f23-40c0-a165-27deeaf5fbec]; [UI] Slot reservation for search page end-to-end task [task:f557e9ea-4f23-40c0-a165-27deeaf5fbec]","completion_notes":"Auto-completed by supervisor after successful deploy to main","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"docs/planning/specs/df826359-8b3_search_ensure_search_page_works_end_to_spec.md","provider":"any","payload_json":"{\"_stall_skip_providers\": [], \"_stall_requeued_by\": \"minimax\", \"_stall_requeued_at\": \"2026-04-14 05:15:01\", \"_stall_skip_at\": {}, \"_stall_skip_pruned_at\": \"2026-04-14T10:37:14.022390+00:00\", \"completion_shas\": [\"fc2bfb763c0599dd565bdda915a496f7ccaf8d76\", \"a28ad8f3de6ea3c1a8d0da6d8b00819de0e329d9\", \"932084be31124cf66fdee44e23a135316b0c8d5f\", \"b345c1a304152858c75e22f483835e387b7e103e\"], \"completion_shas_checked_at\": \"2026-04-16T01:23:09.201021+00:00\"}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"dcbe45bb-d31e-403e-b7f6-f26ba8c9a224","title":"[Atlas] Hybrid lexical+semantic search with quest-relevance + recency reranker","description":"RRF-fuse FTS5+vector_search top-50 each, rerank by quest_priority+recency+epistemic_tier+author_calibration.","status":"done","priority":91,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-27T11:06:47.924697+00:00","updated_at":"2026-04-27T11:06:47.924697+00:00","summary":"","completion_summary":"[Atlas] Hybrid lexical+semantic search with quest-relevance + recency reranker","completion_notes":"Auto-completed by supervisor after successful deploy to main","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"docs/planning/specs/q-srch-hybrid-rerank_spec.md","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"a2a9411c-09fe-48c3-ab3d-6b6421af220b","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:19.909754+00:00","summary":"","completion_summary":"Search works end-to-end. /search and /api/search both return 200. Query 'TREM2' returns 115 results across all 10 content types: hypothesis (20), entity (20), experiment (20), wiki_page (20), paper (20), notebook (5), analysis (3), debate (3), target (2), gap (2). All content types represented.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"101acc62-75b9-430e-848e-20547d2eacab","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:19.894386+00:00","summary":"","completion_summary":"Already verified (4th duplicate). Search works across all 10 content types.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"2714119d-424c-4e75-8141-48e2c238dd80","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:19.878484+00:00","summary":"","completion_summary":"Search works end-to-end across all 10 content types. Tested with 'TREM2' query: 40 results spanning hypotheses (5), analyses (3), entities (5), experiments (5), targets (2), wiki pages (5), papers (5), debates (3), gaps (2), notebooks (5). All pages return 200 with 42K+ content.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"3e8d3d71-b30a-45cf-bbda-f513804da748","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:19.861031+00:00","summary":"","completion_summary":"Already verified (3rd duplicate). Search works across all 10 content types.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"4613f3d4-482d-4b21-b564-61657ec6c241","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:19.833896+00:00","summary":"","completion_summary":"Already verified (duplicate task). Search works across all 10 content types: hypothesis, analysis, experiment, target, wiki_page, entity, paper, debate, notebook, gap. All tested and working.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"882e81a7-3fe7-4b85-bce5-95bd46afa5d6","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:19.816088+00:00","summary":"","completion_summary":"Search works end-to-end across all 10 content types: hypothesis, analysis, experiment, target, wiki_page, entity, paper, debate, notebook, gap. Tested 5 different queries, all return 100+ results. API endpoint /api/search returns structured JSON. HTML page renders results with type-specific styling and filtering.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"2917da98-7564-4822-b945-ab71532d5eb5","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:19.764850+00:00","summary":"","completion_summary":"Verified /search page works end-to-end with all 10 content types: hypotheses, analyses, entities, wiki pages, experiments, targets, papers, debates, knowledge gaps, and notebooks. API returns results for all types with FTS5 ranking. All result links resolve to valid pages (200 status). Analytics endpoint working. Edge cases handled (short queries, special chars, type filters). No changes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"39bb2b36-ed64-45a6-98e8-89019ea75ca5","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:19.749270+00:00","summary":"","completion_summary":"Verified /search page works end-to-end with all 10 content types: hypothesis, analysis, entity, wiki_page, experiment, target, paper, debate, gap, notebook. All type filters return results. Search analytics sidebar loads. Result links are valid (200). URL query parameter works. No fixes needed — search was already fully functional.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"4d81e116-fcf1-49d3-bd64-e0c00d98da85","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:19.728326+00:00","summary":"","completion_summary":"Duplicate of 9fce22e6. Search verified working across all 10 content types.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"eb01835c-a2da-49f0-a47b-e1b1da4fa895","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:19.707897+00:00","summary":"","completion_summary":"Verified /search page works end-to-end with all 10 content types (hypothesis, analysis, entity, wiki_page, experiment, target, paper, debate, gap, notebook). All return results correctly. Fixed a 500 error on /api/search/click caused by missing 'logger' definition — added logger = logging.getLogger('scidex_api') to api.py. This also fixes potential error handling in 15+ other logger references throughout search, exchange, and other endpoints.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"9e4f93f3-0409-45de-b1cc-455bd13b7de7","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:19.686646+00:00","summary":"","completion_summary":"Duplicate — fixed in task b6c10135. Added logger, keyword fallback, fixed score column.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"9fce22e6-1887-4a18-bd09-2f3aadb6c645","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.786397+00:00","summary":"","completion_summary":"Search verified working end-to-end. API search returns results across all 10 content types: hypotheses, analyses, entities, experiments, targets, wiki_pages, papers, debates, knowledge gaps, and notebooks. Tested with TREM2 (115 results), microglia (160), CRISPR (95), Alzheimer (156), neuron (165), pathway (154), senolytic (75), clinical trial (110). FTS5 full-text search with BM25 ranking operational. No fixes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"1e52a250-27f5-4cc9-9013-74dfd702cddd","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.769550+00:00","summary":"","completion_summary":"Duplicate of b6c10135 — already fixed search 500 errors in worktree-fix-search-page branch.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"251b8ba9-91d1-4565-9a02-145c7d884033","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.754512+00:00","summary":"","completion_summary":"Search verified working end-to-end. /search?q=TREM2 returns 200 with all content types: hypotheses (6), analyses (6), wiki (15), entities (17), experiments (9), targets (11), knowledge gaps (1). All types rendering correctly.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"964761a5-4009-43d5-875b-f5fb83e5dfe1","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.739410+00:00","summary":"","completion_summary":"964761a5-4009-43d5-875b-f5fb83e5dfe1","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"b6c10135-6e35-4a11-acd3-f5f07bbb4a9b","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.723955+00:00","summary":"","completion_summary":"Fixed search 500 errors: (1) Added missing 'logger' definition — NameError in exception handlers was causing search to crash on any FTS error. (2) Added keyword search fallback when FTS returns empty. (3) Fixed _keyword_search_fallback using non-existent 'score' column (should be 'composite_score'). (4) Kicked off FTS table rebuilds to fix malformed index. Branch: worktree-fix-search-page pushed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"9a35d7e1-e7e7-40c8-a5d7-110d4240249c","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.705817+00:00","summary":"","completion_summary":"Fixed critical search 500 error: 'logger' was undefined in api.py causing NameError on FTS fallback paths. Added 'logger = logging.getLogger(__name__)' at module level. Search for 'TREM2' returned 115 results across 10 content types (hypothesis, analysis, entity, experiment, gap, notebook, paper, target, wiki_page, debate). Branch: worktree-score-debates, commit eba379b5.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"e0214cd8-e4b6-45aa-bd22-c88c03cf3d8a","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.689009+00:00","summary":"","completion_summary":"Already complete (duplicate task).","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"b576da9c-69ba-423f-9bb3-b16ec2f2af7a","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.673590+00:00","summary":"","completion_summary":"Verified /search works end-to-end with all content types. API /api/search returns results for all 10 types: hypothesis, analysis, entity, wiki_page, experiment, target, paper, debate, gap, notebook. FTS5 full-text search with BM25 ranking works correctly (e.g., 'TREM2' returns 115 results, 'Alzheimer' returns 156). Search analytics endpoint functional with 550 tracked queries. Client-side JS correctly calls API and renders results. No fixes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"18ba512d-4dec-4303-a1c8-af05de932fd9","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.658538+00:00","summary":"","completion_summary":"Verified complete by slot 1","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"4e1aca3b-4893-4d57-ab25-24bb85b92f0c","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. 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Page loads in <12ms.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"6cc8e6da-a57f-46cc-ace6-c3fc05b0965c","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.508820+00:00","summary":"","completion_summary":"Search page works end-to-end. Verified /search returns results for all content types: hypotheses, analyses, wiki pages, entities, experiments, targets, and debates. Tested with queries for 'alzheimer', 'parkinson', 'BRCA1', 'autophagy', 'clinical trial' - all return HTTP 200 with mixed results. Empty search also works.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"1700407a-4f93-4714-907a-0bed20dbc813","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.493774+00:00","summary":"","completion_summary":"Dup: already implemented.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"c96f64cf-95dc-42d0-82cc-26962a7b79b9","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.478202+00:00","summary":"","completion_summary":"Dup: already implemented.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"958409cc-f5f3-467b-82d8-694960d6a088","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.463063+00:00","summary":"","completion_summary":"Verified /search page works end-to-end: /api/search returns all 10 content types (hypothesis, analysis, entity, wiki_page, experiment, target, paper, debate, gap, notebook). FTS5 indexes exist for hypotheses, analyses, wiki_entities, wiki_pages, papers. Type filtering works. Analytics endpoint works. Search page HTML properly renders with injected nav and breadcrumbs. No fixes needed — all content types functional.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"029cf68f-8dca-4997-9f29-ab2e8ebd1c01","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.446453+00:00","summary":"","completion_summary":"029cf68f-8dca-4997-9f29-ab2e8ebd1c01","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"589e05cb-0ddb-4029-a0ff-5535547d1000","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.429976+00:00","summary":"","completion_summary":"589e05cb-0ddb-4029-a0ff-5535547d1000","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"02fd713e-b682-48ca-ae31-b8f5eec753e8","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.414744+00:00","summary":"","completion_summary":"Search page verified working end-to-end. API returns results across all 10 content types: hypothesis, analysis, entity, experiment, target, wiki_page, paper, debate, gap, notebook. HTML page renders correctly with styled results. No fixes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"00be6c11-c0e3-42c1-aa22-f16bd1b570b6","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.400664+00:00","summary":"","completion_summary":"00be6c11-c0e3-42c1-aa22-f16bd1b570b6","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"bf14eef9-295c-4dcd-9028-7ac721ace740","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.384735+00:00","summary":"","completion_summary":"Duplicate one-time task - already verified complete.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"cc65cb63-f689-4891-8e1e-3e32a556c842","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.370123+00:00","summary":"","completion_summary":"Search fully operational: /search page and /api/search endpoint return results across all 10 content types (analysis, debate, entity, experiment, gap, hypothesis, notebook, paper, target, wiki_page). Tested with multiple queries (TREM2, microbiome, alzheimer, senolytic, CRISPR) — all return rich cross-type results.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"d27ba7de-030c-4127-a725-d0a3fef18e00","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.355736+00:00","summary":"","completion_summary":"Dup: search covers 10 types.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"c9d6d3c8-42ca-499e-8535-9ef1e2bdce95","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.340958+00:00","summary":"Already done: Search returns all content types working end-to-end","completion_summary":"Duplicate: search covers all 10 content types.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"7557b71c-8022-44da-a665-b0e8d348373a","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.326495+00:00","summary":"","completion_summary":"Already verified — search returns all 10 content types (hypothesis, analysis, entity, experiment, target, wiki_page, paper, debate, gap, notebook). /search page renders 200.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"2abab7d8-3ee9-44f8-a3ac-b575c2ec6077","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.312717+00:00","summary":"","completion_summary":"Duplicate.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"354c3d1c-fed8-4ce2-9e2f-9e4e5fdcf447","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.298335+00:00","summary":"","completion_summary":"Duplicate - already completed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"d0fa1be6-1428-4ec4-901d-9331b9f59839","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.284392+00:00","summary":"","completion_summary":"Search works end-to-end: /api/search returns results for all 10 content types (hypothesis, analysis, entity, experiment, target, wiki_page, paper, debate, gap, notebook). /search page renders at 200. Tested with TREM2 and APOE queries — all types returned.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"bb4e97ac-a2c2-4a12-81a4-c36b6a178674","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.269611+00:00","summary":"","completion_summary":"Search works end-to-end across all content types: hypotheses (20), experiments (20), wiki pages (20), papers (20), entities (15), notebooks (4), analyses (3), debates (3), targets (2), gaps (2). Both /search page and /api/search endpoint return results for 10 content types.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"c4e6781e-658a-4bed-a724-bdbb569bed7a","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.254353+00:00","summary":"","completion_summary":"Verified: /api/search covers all 10 content types (hypothesis, analysis, entity, wiki_page, experiment, target, paper, debate, gap, notebook) with FTS5 and LIKE fallbacks. All return results correctly.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"6c34a68e-e848-412a-a9ec-d69d7a61d0d7","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.239908+00:00","summary":"","completion_summary":"Duplicate of task dd396b60 already completed. Search works for all 8 content types.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"dd396b60-53a9-425e-bd44-257b32f8eeec","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.224833+00:00","summary":"","completion_summary":"Search page works end-to-end. Tested with multiple queries (TREM2, alzheimer, alpha-synuclein, neuroinflammation). All 8 content types return results: hypotheses, analyses, wiki pages, entities, experiments, targets, papers, debates. Both /search HTML page and /api/search JSON endpoint return 200. Empty query and special characters handled correctly.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"11201c5f-ee30-4e3c-9266-fec85d714dd5","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.209509+00:00","summary":"","completion_summary":"Duplicate - already verified: search returns all content types (analysis, debate, entity, experiment, gap, hypothesis, notebook, paper, target, wiki_page).","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"dc827820-1517-4f4d-b2be-c0e57aba9e04","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.194890+00:00","summary":"","completion_summary":"Search works end-to-end. /search and /api/search return all content types: analysis, debate, entity, experiment, gap, hypothesis, notebook, paper, target, wiki_page. HTML page renders cleanly with type filters.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"00e9f54b-d9d7-4dad-a7b6-b4416c678845","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.180108+00:00","summary":"","completion_summary":"Verified /search page works end-to-end with all 10 content types (hypothesis, analysis, entity, wiki_page, experiment, target, paper, debate, gap, notebook). Fixed /api/search/click and /api/search/analytics endpoints that were timing out due to DB lock contention — switched to dedicated short-lived connections with WAL mode.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"6697c38a-fa47-4a38-b3de-8eb7aef67b74","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.165442+00:00","summary":"","completion_summary":"","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"af27046d-6da1-45d6-8902-58fa375bd252","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.150554+00:00","summary":"","completion_summary":"Search works end-to-end. /api/search returns 10 content types: hypothesis, analysis, wiki_page, entity, experiment, target, paper, notebook, debate, gap. Tested with 'TREM2' query - returns 209 results across all types. /search page renders at 200 OK. All content types requested (hypotheses, analyses, wiki pages, entities, experiments, targets) are included plus extras (papers, notebooks, debates, gaps).","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"41604b46-fb2b-46e6-a229-639ac8aff375","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.134967+00:00","summary":"","completion_summary":"","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"31ae4822-a7fd-47b2-b12a-9680800cbfff","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.120279+00:00","summary":"","completion_summary":"Verified complete.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"0f14087f-d7aa-41b3-950d-0c3fccd045a6","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.103514+00:00","summary":"","completion_summary":"Already complete.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"4f31f021-a3a1-41bf-86f9-7b2de2fbde18","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.085733+00:00","summary":"","completion_summary":"Already complete.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"e90347f7-7e3c-445c-bbb3-3603fd299484","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.068443+00:00","summary":"","completion_summary":"Already complete.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"ec645a8e-1bb0-4eb5-8495-9c52a04ab508","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.048138+00:00","summary":"","completion_summary":"Already verified — search returns all content types: hypothesis, analysis, wiki_page, experiment, paper, entity, target, debate, notebook, gap.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"596c1e6a-71e8-4b15-9ab6-7a3c6d0f1fec","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.033146+00:00","summary":"","completion_summary":"Duplicate task — already verified complete","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"cb72a649-2393-4d5f-8b1e-54530017dbe2","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.018139+00:00","summary":"","completion_summary":"Duplicate. Search works with all content types.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"7fdf8e06-2b17-4eb5-ade9-8170b12ba896","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:16.004085+00:00","summary":"","completion_summary":"Duplicate of task ab729197. Search works end-to-end: 10 content types, TREM2 returns 109 results, tau 136 results. All queries return 200.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"6fd85b24-0b70-4724-9368-ed14e9ecec1b","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.988601+00:00","summary":"","completion_summary":"Search works end-to-end. /api/search returns all content types: hypotheses, analyses, wiki_pages, entities, experiments, targets, papers, notebooks, debates, gaps. /search page renders 200 OK with results for all types.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"ab729197-3e5f-446d-9ab0-5e1584963510","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.972876+00:00","summary":"","completion_summary":"Search works end-to-end. /search page (41KB, client-side rendering) + /api/search API both functional. Tested TREM2 (109 results), tau (136), mitochondrial (122), APOE (106), synapse (92). Returns 10 content types: hypothesis, analysis, wiki_page, entity, experiment, target, paper, debate, gap, notebook. All queries return 200.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"fb234d30-3928-47c3-9e44-077930c28f29","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.957807+00:00","summary":"","completion_summary":"Duplicate — search works, returns 10 content types.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"cd7a593b-4819-42a7-9050-047bdc90647b","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.943366+00:00","summary":"","completion_summary":"Search works end-to-end across all content types. Tested with multiple queries. /api/search returns results for: wiki_page, paper, hypothesis, experiment, entity, notebook, analysis, debate, target, gap (all 10 types). 'TREM2' returns 209 results, 'lipid' and 'aging' both return 30+ results across all types.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"4ca00568-9c02-4674-ac7c-ac3e1d476b8a","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.928166+00:00","summary":"","completion_summary":"Search page works end-to-end. /search returns 200, /api/search returns all content types: hypothesis(20), analysis(3), wiki_page(20), experiment(20), paper(20), entity(15), target(2), debate(3), notebook(4), gap(2). Type filters work. URL-encoded queries work. No fixes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"03c621ac-2382-420d-847a-129e1dddcf04","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.912263+00:00","summary":"","completion_summary":"Search works end-to-end. /search page loads (200). API returns 10 content types: hypothesis, analysis, wiki_page, entity, experiment, paper, debate, gap, notebook, target. Tested with queries: tau, CRISPR, autophagy, senolytic, BRCA1.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"15276156-929d-409a-a89e-d74b8cb76b25","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.898174+00:00","summary":"","completion_summary":"Duplicate. Search verified working end-to-end.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"8d8645c6-1bc3-4ca5-822e-159b0267cebf","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.883550+00:00","summary":"","completion_summary":"Duplicate. Search verified working with all 10 content types.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"2cdf1936-a1e9-47bf-b39c-8871ff596bec","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.869154+00:00","summary":"","completion_summary":"Duplicate task. Search page verified working with all 10 content types, all type filters, all result links HTTP 200.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"bbd1c392-d411-4544-b9a0-a17e601c90f0","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.853749+00:00","summary":"","completion_summary":"Search page works end-to-end. /search?q=TREM2 returns 41KB page (200 OK) with all content types: hypotheses, analyses, experiments, targets, entities, wiki pages, debates, notebooks. API endpoint /api/search returns 109 results for TREM2. Tested 5 queries — all return rich results (34-156 hits).","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"30c26e61-7e9d-4886-9575-f88d564e84b0","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.838696+00:00","summary":"","completion_summary":"Search works end-to-end. /api/search returns 10 content types: hypothesis, analysis, experiment, target, entity, wiki_page, paper, debate, notebook, gap. Tested with 'TREM2' (39 results) and 'Alzheimer' (89 results). /search page renders 200 OK. Empty queries return 0 results gracefully. All content types represented in search results.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"5d50c2b1-00c7-4eda-a117-39756f97ba73","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.824788+00:00","summary":"","completion_summary":"Already complete.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"b5a5bc5d-7157-45bd-9e44-19b3921bb801","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.803602+00:00","summary":"","completion_summary":"Search page verified working end-to-end with all 10 content types: hypotheses, analyses, entities, wiki_pages, experiments, targets, papers, debates, gaps, notebooks. All type filters work. All result links resolve to HTTP 200. FTS5 full-text search with BM25 ranking. Analytics sidebar functional. No changes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"ab9d8409-fd38-45bb-be56-99418eba7253","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.788049+00:00","summary":"","completion_summary":"Duplicate task — already fixed in task 5bda8216. Removed duplicate knowledge gap and notebook search blocks. All 10 content types verified working.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"8b74d3ea-cdda-4bbc-b6c1-32c27c8ef1d1","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.771851+00:00","summary":"","completion_summary":"Already fixed in task 5bda8216: removed duplicate knowledge gap and notebook search blocks in /api/search. All 10 content types (hypothesis, analysis, entity, wiki_page, experiment, target, paper, debate, gap, notebook) work end-to-end. Search HTML page handles all types with proper styling and click tracking.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"5bda8216-31c9-4389-8d44-458ad6eb76fd","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.752731+00:00","summary":"","completion_summary":"Fixed duplicate search blocks in /api/search endpoint. Knowledge gaps and notebooks were each queried twice, producing duplicate results. Removed the redundant second block for each. Verified all 10 content types (hypothesis, analysis, entity, wiki_page, experiment, target, paper, debate, gap, notebook) work end-to-end. Search HTML page properly handles all types with correct styling and click tracking.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"2d7a39dc-fd4a-4a89-bffb-49fa9573aafd","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.733585+00:00","summary":"","completion_summary":"Added knowledge gap and notebook search to /api/search endpoint (LIKE queries on knowledge_gaps and notebooks tables). Updated search.html with gap/notebook type styles, filter options, and metadata display. All 10 content types now searchable: hypothesis, analysis, entity, wiki_page, experiment, target, paper, debate, gap, notebook.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"9209f722-572c-4e87-b10e-7859fd518bfc","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.715171+00:00","summary":"","completion_summary":"Search works end-to-end with all 10 content types (hypothesis, analysis, entity, experiment, target, wiki_page, paper, debate, gap, notebook). Added graceful DB connection error handling so search returns empty results instead of 500 when DB is temporarily unavailable. Verified: /api/search?q=APOE returns 23 results across all types with HTTP 200.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"1295b6e5-7d73-45fd-81de-e86b06b35cd7","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.696736+00:00","summary":"","completion_summary":"Already complete.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"85f032c9-ed5d-4e35-bcfc-26d2d9879729","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.680707+00:00","summary":"","completion_summary":"Verified /search page works end-to-end. All 10 content types (hypothesis, analysis, entity, wiki_page, experiment, target, paper, debate, gap, notebook) are supported in both API and frontend. Added error resilience: wrapped experiment/target search in try/except with logging (previously unprotected - could crash whole endpoint). Added warning logs to FTS fallback function. Gap/notebook search code already in codebase - will activate on next API restart. Frontend handles all types with proper badges, colors, and metadata display.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"e00ffda7-cd8d-4a69-a2f8-8d2e68e3f36c","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.662606+00:00","summary":"","completion_summary":"Auto-completed - data already enriched, duplicate prevention","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"f0bf2a69-08c6-49e8-9eff-8907c01a6f2f","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.619891+00:00","summary":"","completion_summary":"Search works end-to-end across all major content types: hypothesis, analysis, entity, wiki_page, experiment, target, paper, debate. Notebooks and gaps are in current codebase (api.py line 4393) but running server needs restart to pick up latest code. /search page loads correctly.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"92ced932-53f5-4796-91a8-b14671d71243","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.606550+00:00","summary":"","completion_summary":"Duplicate — verified 4 times.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"8733a7d6-fe96-4fcc-b5a9-94353c43e079","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.592200+00:00","summary":"","completion_summary":"Duplicate — verified 3 times already.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"d605aaa4-e1ac-4d47-8107-084f2486ca4a","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.576772+00:00","summary":"","completion_summary":"Duplicate — verified twice already. Search works across all 10 content types.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"2a209368-5aa5-43bc-994d-5ac5629cd876","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.561057+00:00","summary":"","completion_summary":"Duplicate of 1f63e506 already verified. Search works across all 10 content types: hypothesis, analysis, entity, wiki_page, experiment, target, paper, debate, gap, notebook. FTS5 + LIKE fallback. URL param auto-search. All functional.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"1f63e506-d85e-4e78-a073-2ab98d341ada","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.546757+00:00","summary":"","completion_summary":"Verified /search page works end-to-end with all 10 content types (hypothesis, analysis, entity, experiment, target, wiki_page, paper, debate, gap, notebook). On-disk code returns results for all types. Running server has stale code missing gap/notebook search - will resolve on restart. FTS5 + LIKE fallback works correctly. URL param auto-search works. No code changes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"fe8c4a4c-9476-4ee2-a033-bf427d95977c","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.532552+00:00","summary":"","completion_summary":"Added notebooks (125 Jupyter notebooks) to global search API and UI. Search now covers 10 content types: hypotheses, analyses, entities, wiki_pages, experiments, targets, papers, debates, gaps, and notebooks. Updated search.html with notebook type styling, filter option, and display logic.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"746d7357-4f45-455a-88b0-abc76cf3cc20","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.518813+00:00","summary":"","completion_summary":"Search works end-to-end across all 8 content types: hypothesis, analysis, wiki_page, entity, experiment, target, debate, paper. Tested with queries for TREM2, Alzheimer, tau, microglia, CRISPR — all return diverse results. /search page loads correctly and renders results.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"06c57b8c-7684-44c3-ac07-82d3a2edfb1f","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.503664+00:00","summary":"","completion_summary":"--slot","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"6f75e310-e58c-4e31-9878-47a2031d8f55","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.487633+00:00","summary":"","completion_summary":"--slot","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"6bf79778-9b60-417d-ad49-f56cf4b45e83","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.472378+00:00","summary":"","completion_summary":"Verified: /search page works end-to-end. API returns results for all 8 content types (hypothesis, analysis, entity, experiment, target, wiki_page, paper, debate). HTML page renders at ~37KB. All endpoints return HTTP 200.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"ab9f950b-3447-4846-8296-dd8662e96c78","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.457797+00:00","summary":"","completion_summary":"Verified /search page works end-to-end with all 9 content types: hypothesis, analysis, entity, wiki_page, experiment, target, paper, debate, gap. All return results for varied queries (APOE, tau, alzheimer, BACE1, microglia, blood brain barrier). Type filtering, score filtering, date filtering, analytics sidebar, click tracking all functional. Edge cases (empty query, special chars) handled correctly. No fixes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"eb06a191-3527-485f-a36b-76a204a1f616","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.443833+00:00","summary":"","completion_summary":"Fixed 10-second /api/search response time caused by search_queries INSERT blocking on DB write lock (timeout=10). Changed to separate connection with 0.5s timeout for best-effort logging. Rebuilt broken FTS5 indexes (analyses_fts, wiki_pages_fts). Added rebuild_fts.py utility. All 9 content types return results.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"aeb5f9f4-ebc4-45e6-bb24-e77fde7ec294","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.430465+00:00","summary":"","completion_summary":"Search works end-to-end: /api/search returns all 8 content types (hypothesis, entity, experiment, wiki_page, paper, target, analysis, debate) with 119 results for test query. HTML /search page auto-searches from URL params, has live debounced search, type/score/date filters, popular searches sidebar, trending entities. JavaScript SPA calling API.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"716f9ac0-4512-4f67-a299-0b5228b88afa","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.416090+00:00","summary":"","completion_summary":"Search page works end-to-end with all 9 content types (hypotheses, analyses, entities, wiki_pages, experiments, targets, papers, debates, gaps). Fixed gap/debate search reliability: added PRAGMA query_only for read-only search connection, added retry with fresh connection for gap search, added logging to debate/gap exception handlers.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"df59e381-12e5-478f-a85b-786dd6557dc7","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.402057+00:00","summary":"","completion_summary":"Verified all 9 search content types (hypothesis, analysis, entity, wiki_page, experiment, target, paper, debate, gap) work end-to-end. Fixed /api/search/click 500 errors caused by get_db() outside try/except during DB lock contention. Hardened /api/search/analytics with graceful fallback. Gap search code verified correct — current API process needs restart to pick up recent fixes.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"3a5c64ec-c185-4dc0-a8dc-79f1b97de34e","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.384930+00:00","summary":"","completion_summary":"Search works end-to-end. /api/search returns 8 content types: hypotheses, analyses, wiki_pages, entities, experiments, targets, papers, debates. Verified with TREM2 (102 results) and tau queries. /search UI page renders all types correctly (HTTP 200).","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"8d3f8797-d351-45ca-9d7d-1c1227583958","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.367724+00:00","summary":"","completion_summary":"Search works end-to-end. Tested /search page (200 OK) and /api/search API. Query 'TREM2' returns 102 results spanning all content types: hypotheses (20), analyses (3), entities (14), experiments (20), wiki_pages (20), papers (20), debates (3), targets (2). No fixes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"e4c05531-7719-489f-9475-7bead32827ca","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.352022+00:00","summary":"","completion_summary":"Search verified working end-to-end. /search page loads JS that fetches /api/search, which returns all 8 content types: hypothesis, analysis, entity, experiment, paper, target, wiki_page, debate. Tested with multiple queries (tau, NLRP3, alzheimer, CRISPR). Edge cases handled gracefully (empty/short/nonexistent queries return 0 results). No fixes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"cf3581dc-ed7e-4688-aea7-bacf63e6da74","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.338125+00:00","summary":"","completion_summary":"Verified /search works end-to-end with all 9 content types (hypothesis, analysis, entity, wiki_page, experiment, target, paper, debate, gap). Added error logging to 4 exception handlers that were silently swallowing failures. All search result links verified pointing to valid routes.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"b0b8adaf-d464-4029-a15c-c194b6100214","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.323657+00:00","summary":"","completion_summary":"Duplicate of f46fa52a. Search already works end-to-end with all content types: hypotheses, analyses, wiki entities, wiki pages, experiments, targets, papers, debates. FTS5 with BM25 ranking. See f46fa52a completion notes.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"b87f75d7-d5f8-4d94-8d1a-f4fca44d2b8a","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.308654+00:00","summary":"","completion_summary":"Search page works end-to-end with all 8 content types (hypothesis, analysis, entity, experiment, target, wiki_page, paper, debate). Fixed bug: entity names with spaces now URL-encoded in search result links.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"f46fa52a-2cf9-41c0-ad2f-a99b50026bbc","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.294432+00:00","summary":"","completion_summary":"Search page works end-to-end: /search has search input with debounced typeahead, type/score/date filters, results display with type badges and links, click tracking, sidebar with popular searches and trending entities. /api/search uses FTS5 with BM25 ranking across 7 content types (hypotheses, analyses, wiki entities, wiki pages, experiments, targets, papers, debates) with LIKE fallback. FTS queries complete in <5ms. Analytics tracking via search_queries table. Current 10s latency from running server needing restart to load latest code with FTS.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"56cea11b-8fe1-4100-8c61-1fe8a999fca2","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.279934+00:00","summary":"","completion_summary":"Verified search works end-to-end: /search page loads (200), /api/search returns results for all 8 content types (hypothesis, analysis, entity, wiki_page, experiment, target, paper, debate), type filtering works for each type individually and combined, FTS5 tables exist for hypotheses/analyses/wiki_entities/wiki_pages/papers, LIKE fallback works for experiments/targets/debates, click tracking works, analytics endpoint works, all result links resolve to 200. No fixes needed — search is fully functional.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"cda2484f-5d3d-4a6c-aded-ae14bcd7307b","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.264305+00:00","summary":"","completion_summary":"Verified /search page works end-to-end with all 9 content types (hypotheses, analyses, entities, wiki_pages, experiments, targets, papers, debates, gaps). The /api/search endpoint already handles all types with FTS5+BM25 for hypotheses/analyses/entities/wiki_pages/papers and LIKE fallback for experiments/targets/debates/gaps. Fixed: added id attributes to gap card divs on /gaps page so search result hash links (/gaps#gap-id) anchor correctly. All link destinations return 200. Analytics endpoint working. Branch: worktree-fix-search-page","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"91fa2835-bb83-4a34-8473-14606d13b63e","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.249191+00:00","summary":"","completion_summary":"Verified /search works end-to-end: HTML page returns 200, API /api/search returns results for all 8 content types (hypothesis, analysis, entity, experiment, target, wiki_page, paper, debate). Type filtering works. FTS5 search with BM25 ranking + LIKE fallback all functioning correctly.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"2332fa23-8139-442f-9c83-1417d9665bbf","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.233001+00:00","summary":"","completion_summary":"Fixed search to work end-to-end with all content types: (1) Added missing _keyword_search_fallback, _format_vector_results, _format_hybrid_results functions to api.py that were referenced but never defined, (2) Expanded vector_search.py keyword search to cover entities, wiki pages, experiments, and targets (was only hypotheses+analyses), (3) Resolved merge conflicts with upstream search.html that already added frontend CSS/filters for papers and debates","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"fd812d89-4a95-4986-aeea-e7b0bcedd136","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.218752+00:00","summary":"","completion_summary":"Verified /search page works end-to-end. All 8 content types return results: hypotheses (FTS+BM25), analyses (FTS), wiki entities (FTS), wiki pages (FTS), experiments (LIKE), targets (LIKE), papers (FTS), debates (LIKE). Type filtering, analytics, and click tracking all functional. Multi-word queries work. No fixes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"95c53888-6398-4b3d-8bd8-0622fd21caa4","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.204617+00:00","summary":"","completion_summary":"Verified /search page works end-to-end with all 8 content types: hypotheses, analyses, entities, wiki_pages, experiments, targets, papers, debates. API returns results with FTS5 BM25 ranking, LIKE fallbacks, type filtering, analytics/click-tracking. Frontend renders all types with proper badges and navigation. No fixes needed — all content types functional.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"9d9efa1f-0373-4884-896c-0527fd2a224c","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.185889+00:00","summary":"","completion_summary":"Search works end-to-end for all 8 content types: hypotheses, analyses, entities, wiki_pages, experiments, targets, papers, debates. Tested with multiple queries (tau, LRRK2, alzheimer, microglia, APOE). FTS5 search with BM25 ranking + LIKE fallback. Search page has type filters, time filters, and client-side rendering via /api/search. No issues found.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"5fd8c7b8-3b8b-4be0-8799-ad50040bd23c","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.170456+00:00","summary":"","completion_summary":"Verified /search works end-to-end with all 9 content types (hypothesis, analysis, entity, wiki_page, experiment, target, paper, debate, gap). Added knowledge_gaps as new searchable type. Added gap type CSS/filter/display in search UI. Merged with upstream interleaving feature. All types return results, links verified working.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"66de2050-7d1b-45b5-b2f6-c948662e4f8f","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.154534+00:00","summary":"","completion_summary":"Verified /search works end-to-end. API endpoint /api/search returns results for all 8 content types: hypothesis (20), experiment (20), wiki_page (20), paper (20), entity (14+), analysis (3+), debate (3+), target (2+). Page renders correctly. Empty queries return graceful empty state. No fixes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"38bcb720-3c6d-4c32-a993-cb3894832cf5","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.140638+00:00","summary":"","completion_summary":"Verified /search page works end-to-end with all 8 content types (hypothesis, analysis, entity, experiment, target, wiki_page, paper, debate). API returns results for all types, FTS5 tables exist for 5 types with LIKE fallback for 3 others, all result links resolve to 200, search analytics endpoint works, and client-side filtering functions correctly. No fixes needed — search is fully operational.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"8524ecc0-5d25-4c0c-af8c-3f5c4d5a1a26","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.127021+00:00","summary":"","completion_summary":"Verified /search page works end-to-end with all 8 content types: hypotheses (20), analyses (6), entities (20), wiki_pages (20), experiments (20), targets (8), papers (20), debates (5). All result links resolve to 200. Type filters, score filters, date filters, analytics sidebar, and URL query params all functional. No fixes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"3da86244-0781-4e38-81ee-13e36a3f326a","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.112565+00:00","summary":"","completion_summary":"Duplicate of task 2022eab7 already completed. Search API returns results across all 8 content types (hypotheses, analyses, entities, wiki_pages, experiments, targets, papers, debates). FTS5 indexes in sync. Analytics endpoint functional.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"bc58c8ba-35b6-48c6-b9e9-dc2c73e31970","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.098100+00:00","summary":"","completion_summary":"Verified search page works end-to-end with all 8 content types (hypotheses, analyses, entities, wiki_pages, experiments, targets, papers, debates). FTS5 full-text search with BM25 ranking works. Type filtering, click tracking, analytics sidebar, URL query params all functional. No fixes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"2022eab7-1a09-4379-88af-44591880de15","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.082860+00:00","summary":"","completion_summary":"Verified /search page works end-to-end with all 8 content types: hypotheses, analyses, entities, wiki_pages, experiments, targets, papers, debates. FTS5 indexes in sync for 5 tables. Analytics endpoint functional with 368 logged queries. Type/score/date filters work. No missing content types or bugs found.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"438dca7f-4992-4d2c-830c-2cb4e529a0ce","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.068165+00:00","summary":"","completion_summary":"Search works end-to-end. API returns all 8 content types: hypotheses, analyses, entities, experiments, papers, targets, wiki_pages, debates. Tested with multiple queries (alzheimer=132 results, BRCA1=29 results). Empty query handled gracefully. Page renders 200 OK.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"4bda7198-390c-475b-9ddb-a31def4de9fb","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.052863+00:00","summary":"","completion_summary":"Search works end-to-end across all 8 content types: hypotheses, analyses, wiki pages, entities, experiments, papers, debates, and targets. Verified with multiple queries (TREM2, alzheimer, mitochondrial, insulin, amyloid) — each returns 84-132 results spanning all content types. Both /search HTML page and /api/search JSON endpoint function correctly.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"2ec4e389-fc21-4676-b44d-0530fe16d892","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.037178+00:00","summary":"","completion_summary":"Verified /search page works end-to-end with all 8 content types. Improved UX: interleaved round-robin results, result count with clickable type badges, 100-result display cap.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"997aeaa9-d229-493f-b3c7-e80da2246794","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.022078+00:00","summary":"","completion_summary":"Already verified complete in slot 3 session.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"a455c640-815a-4fb5-96f2-c1240446df9c","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:15.007551+00:00","summary":"","completion_summary":"Search works end-to-end: /search page returns 200, API returns results across 8 content types (hypothesis, experiment, wiki_page, paper, entity, analysis, debate, target). Tested with TREM2 (102 results) and APOE queries. All content types represented in results.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"edded094-8960-4505-b332-a9563b91ccc1","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.992951+00:00","summary":"","completion_summary":"Already verified: /search and /api/search work end-to-end with all 8 content types. Type filtering, edge cases, and autocomplete all functional.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"9c3d0f1b-4e38-42d8-99c3-9cf9d0914057","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.978497+00:00","summary":"","completion_summary":"Search is fully functional end-to-end across all 8 content types (hypotheses, analyses, entities, wiki_pages, experiments, targets, papers, debates). FTS5 with BM25 ranking for hypotheses/analyses/entities/wiki_pages/papers, LIKE fallback for all. /search page has type/score/date filters, analytics sidebar, click tracking, and URL parameter support.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"29f66711-7853-4455-a1c9-6b34114d0717","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.963370+00:00","summary":"","completion_summary":"Verified /search page and /api/search work end-to-end. All 8 content types return results: hypotheses(199), papers(4978), wiki_pages(17257), analyses(47), entities, experiments(188), targets(155), debates(47). Type filtering works. Edge cases handled (empty query, special chars). Nav bar autocomplete functional.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"e1058f3b-196d-4a17-bb70-0ae83300508f","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.947175+00:00","summary":"Duplicate - already implemented","completion_summary":"","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"1e0efc8d-335f-488a-a519-45ef1c1973d4","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.931374+00:00","summary":"","completion_summary":"--output","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"f83e8146-2224-46fa-ae10-0757f0cba753","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.914160+00:00","summary":"","completion_summary":"Verified /search page works end-to-end. API /api/search correctly returns results for all content types (hypothesis, analysis, entity, experiment, target, paper). Type filter works via 'types' parameter. Combined type queries work. FTS5 full-text search with BM25 ranking is active. Search page HTML does client-side fetch rendering — all functionality confirmed operational.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"59187cb7-8778-49b4-8d35-232d8e02ab66","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.899764+00:00","summary":"","completion_summary":"--slot","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"7694336f-fead-4488-88a8-5be5439808ca","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.882714+00:00","summary":"","completion_summary":"--slot","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"ef1a4135-9706-4088-83d4-f637fa7646e2","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.864917+00:00","summary":"","completion_summary":"Search covers all 7 content types (hypothesis, analysis, entity, experiment, target, wiki_page, paper). Fixed silent error handling for wiki_page and paper FTS searches by adding logging and direct LIKE fallback. Frontend handles all types in display and filter.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"38cd1f57-f941-4f90-a158-68ecbeed22a1","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.849492+00:00","summary":"","completion_summary":"Verified /api/search works end-to-end with all 7 content types: hypothesis (47), analysis (3), entity (14), experiment (26), target (2), wiki_page (50), paper (50) for query 'TREM2'. /search page renders correctly. The running API is behind current code — wiki_page results appear correctly in current codebase but need API restart to reflect in production.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"85d59da6-6803-4cce-8c07-dfacde13eb67","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.834636+00:00","summary":"","completion_summary":"","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"bb1befe1-f097-4b06-a1a6-6a5a40431278","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.819181+00:00","summary":"","completion_summary":"--slot","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"5de26199-a9b4-408c-9b3f-6d959ee056c7","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.804104+00:00","summary":"","completion_summary":"Search works end-to-end for all 7 content types: hypothesis, analysis, entity, experiment, target, paper all return results. Wiki_page search had a FTS JOIN bug (f.id=w.id where id is NULL) but this was already fixed in remote main (f.slug=w.slug) — will work after next server restart. Search page JS properly handles all types including wiki_page display.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"c4e2f900-10f6-44e1-8498-794cfda5ee8c","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.788385+00:00","summary":"","completion_summary":"Already complete: /search page works end-to-end with all 7 content types (hypothesis, analysis, entity, wiki_page, experiment, target, paper). FTS5 search with BM25 ranking, type/score/date filters, click tracking, popular searches, trending entities, and search metrics all functional.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"2491fddd-9d01-4809-8a61-351e0a44ced8","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.768136+00:00","summary":"","completion_summary":"Fixed wiki page search - FTS JOIN was using empty id column instead of slug. All 7 content types now work: hypotheses, analyses, entities, wiki pages, experiments, targets, papers. 17,257 wiki pages are now searchable.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"82982f94-db34-4224-adf9-320d2c6e7063","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.752421+00:00","summary":"","completion_summary":"Search page works end-to-end. Verified all content types return results: hypotheses (APOE autophagy), analyses (neuroinflammation), wiki (tau protein), targets (TREM2), experiments, entities (amyloid). Empty search and Unicode queries return 200. No fixes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"f6a97301-8f79-4924-9175-aca9e1532a69","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.737232+00:00","summary":"","completion_summary":"Already completed in task a5b7fe89. Fixed /api/search 500 error caused by sqlite3.Row not supporting .get(). Converted rows to dicts and updated all builder functions. All 7 content types verified: hypotheses, analyses, entities, wiki pages, experiments, targets, papers.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"a5b7fe89-b7c8-44c6-8b9a-c55f51a6f3a3","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.719626+00:00","summary":"","completion_summary":"Fixed /api/search 500 error caused by sqlite3.Row objects not supporting .get() method. Converted all row objects to dicts in _fts_search helper and updated all builder functions (_hyp, _ana, _ent, _wiki, _paper) to use safe .get() access. Added try/except around experiments and targets searches. All 7 content types verified: hypotheses, analyses, entities, wiki pages, experiments, targets, papers.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"d7126693-e373-4efc-a783-664886dc1009","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.704928+00:00","summary":"","completion_summary":"Duplicate - already fixed in commit 4696871. Search API bug (row.get on sqlite3.Row) resolved. All 7 content types work.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"f55cf2c4-cb74-4c82-ac5d-9e4813ce4609","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.687471+00:00","summary":"","completion_summary":"Already fixed in commit 4696871. The root cause was row.get('rank') on sqlite3.Row objects in _hyp builder function causing AttributeError. Fixed by replacing with 'rank' in row.keys(). All 7 content types (hypotheses, analyses, entities, wiki pages, experiments, targets, papers) now work.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"ba2608b8-b58d-4303-98ed-2aff659b24f0","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.664745+00:00","summary":"","completion_summary":"Fixed /api/search 500 error caused by sqlite3.Row.get() AttributeError. Replaced row.get('rank') with 'rank' in row.keys(). Search now returns results for all 7 content types: hypotheses, analyses, entities, wiki pages, experiments, targets, and papers.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"a3a7c50c-bb51-4f03-89bd-7c0bec6de261","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.618013+00:00","summary":"","completion_summary":"Duplicate. Search works end-to-end with all content types.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"b6263044-8397-4178-a814-371a07cac094","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.603149+00:00","summary":"","completion_summary":"Search page verified working end-to-end. /search returns results across all content types: hypotheses, analyses, targets, wiki pages, papers, experiments. All test queries (tau, APOE, alzheimer) return 200 with diverse results.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"dc8c3e39-6e62-47f5-bdbe-cb2955dec380","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.589142+00:00","summary":"","completion_summary":"Search works end-to-end. /search returns 200 and /api/search?q=APOE returns results across all 7 content types: analysis (2), entity (19), experiment (19), hypothesis (20), paper (20), target (1), wiki_page (20). No changes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"e489aa74-8dea-4084-948d-ad00c8f038ba","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.574683+00:00","summary":"","completion_summary":"Search works end-to-end: /api/search returns all 7 content types (hypothesis, analysis, entity, experiment, target, wiki_page, paper). Tested with alzheimer (127 results), parkinson (118), tau (113), APOE4 (67), microglia (124). All return 200 OK.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"0659f59a-1b30-4908-80c9-345cb823c3b4","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.559550+00:00","summary":"","completion_summary":"Upgraded /api/search to use FTS5 full-text search with BM25 ranking for hypotheses, analyses, entities, wiki pages, and papers. Porter stemming gives better matches. Fixed /api/search/click returning 500 errors on DB lock. All 7 content types (hypothesis, analysis, entity, experiment, target, wiki_page, paper) return results end-to-end.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"c9617aaa-7ee8-45fc-87b2-b0632d0c14fe","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.544687+00:00","summary":"","completion_summary":"","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"d57ff695-51a7-4f40-9d32-6d067c70bd38","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.529812+00:00","summary":"","completion_summary":"Search works end-to-end across all 7 content types: hypotheses, analyses, entities, experiments, targets, wiki_pages, papers. Type filtering works. Search analytics (popular queries, trending entities, click tracking) all functional. Test: 'tau' returns 113 results across all types, 'APOE' returns 101 results, type filter correctly limits results.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"e7a861c4-d0ee-403c-bd83-128f1d0293de","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.514884+00:00","summary":"","completion_summary":"Verified search page works end-to-end. All 7 content types return results (hypothesis, analysis, entity, wiki_page, experiment, target, paper). All result links resolve to HTTP 200. Search analytics endpoint works. Edge cases handled (empty query, short query, special chars, unicode). FTS5 tables populated but search uses LIKE - no functional issues found.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"4c923e3f-162e-4c63-a12d-6c71430ac75c","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.498585+00:00","summary":"","completion_summary":"Search page works end-to-end with all 7 content types (hypotheses, analyses, entities, wiki pages, experiments, targets, papers). All return results correctly. Fixed: URL ?q= param support for auto-search, XSS in inline onclick handlers replaced with data attributes and event delegation, URL updates as user searches via history.replaceState.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"1eee0f74-e2a7-4d0c-99c8-81e66f52ca03","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.483776+00:00","summary":"","completion_summary":"Verified /search page works end-to-end. The /api/search endpoint returns all 7 content types: hypothesis, analysis, entity, wiki_page, experiment, target, paper. Type filtering with the types param works correctly. The search.html JS correctly calls /api/search with &types= parameter. No code changes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"acbc6a65-e981-41d6-96d2-a288fb3a75f4","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.468526+00:00","summary":"","completion_summary":"--slot","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"69f53e23-0a86-467b-971c-af02b0d92a16","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.452387+00:00","summary":"","completion_summary":"--slot","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"e056d03b-eabf-4d18-8a9f-891bda87b8a6","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.437430+00:00","summary":"","completion_summary":"--slot","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"59986704-504b-4d6d-8e37-6717e0c2ec1d","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.419650+00:00","summary":"","completion_summary":"--slot","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"28ee4364-b36b-4e86-af07-b284741ad3ff","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.405708+00:00","summary":"","completion_summary":"Verified search works end-to-end for all 7 existing content types (hypothesis, analysis, entity, experiment, target, wiki_page, paper). Added notebooks as 8th searchable content type — 63 notebooks now findable via /api/search and /search UI. Added CSS styling for notebook results. Branch: worktree-fix-search-types","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"30dc1138-2b55-4a8e-9d91-651982239cb4","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.391128+00:00","summary":"","completion_summary":"Search already works end-to-end: /api/search returns all 7 content types (hypotheses, analyses, entities, experiments, targets, wiki_pages, papers), type filtering via types= param works, result links return 200, analytics endpoint works.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"77fd7d66-cbac-47ef-831a-d88cc43faf63","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.375786+00:00","summary":"","completion_summary":"--slot","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"51b36419-b416-436e-a0a6-f0f7841a35ab","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.358858+00:00","summary":"","completion_summary":"--slot","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"59a7162e-1468-4ef2-b0d4-687a4d9aee45","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.343526+00:00","summary":"","completion_summary":"--slot","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"d3625117-adc1-47ea-8f19-f27009de6a9a","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.329124+00:00","summary":"","completion_summary":"Search verified working end-to-end: 7 content types (hypothesis, analysis, wiki_page, entity, experiment, paper, target) all return results. Empty/missing queries handle gracefully. /search UI renders results. /api/search returns structured JSON.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"f44f101a-258b-4951-b5ba-ae7b094fe85c","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.314729+00:00","summary":"","completion_summary":"Duplicate - already verified. Search works across all 7 content types: hypothesis, analysis, entity, experiment, target, wiki_page, paper. TREM2 returns 53 results, Alzheimer 67.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"0dd01829-e744-41a9-b881-4b9fe3e4bdac","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.300763+00:00","summary":"","completion_summary":"Verified search page works end-to-end. API /api/search returns results for all 8 content types (hypothesis, analysis, entity, experiment, target, wiki_page, paper, notebook) with FTS5 search and LIKE fallback. Filter dropdown matches all types. URL query parameter pre-population works. Analytics endpoint functional. Edge cases handled (short queries, no results, type filtering). No changes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"818af885-fcea-40f8-8213-79011296ece7","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.286672+00:00","summary":"","completion_summary":"Search works end-to-end: /api/search returns results for all 7 content types (hypothesis, analysis, entity, experiment, target, wiki_page, paper). TREM2 returns 53 results, Alzheimer 67, microglia 70. Type filtering works via 'types' parameter. /search page renders with JS-driven results. No fixes needed.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"4ae99ca8-d43c-442f-b9a1-dcb740984ad1","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.265036+00:00","summary":"","completion_summary":"Verified: /api/search and /search both work end-to-end. Search returns all 7 content types: hypothesis (20), wiki_page (20), paper (20), entity (13), experiment (9), analysis (3), target (1). Tested with TREM2, Alzheimer, microglia, neurodegeneration queries. HTML page returns 200.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"04292230-bd3a-47de-a0bd-4583e881031c","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.250757+00:00","summary":"","completion_summary":"Verified /search page and /api/search work end-to-end. All 7 content types return results: hypotheses, analyses, entities, experiments, targets, wiki_pages, papers. Query TREM2 returns 86 results across all types. Query alzheimer returns 126 results. /search page renders at 200 OK. No missing content types found.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"a2121a0e-9e43-40e3-b723-69ad6bc180b2","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.235297+00:00","summary":"","completion_summary":"Verified /search works end-to-end: all 8 content types (hypothesis, analysis, entity, experiment, target, wiki_page, paper, notebook) return results from the API. Fixed XSS vulnerabilities in onclick handlers by adding escapeAttr(). Fixed wiki_page filter to use correct API type parameter. All search result links resolve (200).","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"7a23c317-ac1f-453a-aafb-813ac3c99791","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.221098+00:00","summary":"","completion_summary":"Verified /search and /api/search work end-to-end. All 7 content types return correctly: hypothesis, analysis, entity, experiment, paper, target, wiki_page. Edge cases (empty query, nonexistent term) handled gracefully. No code changes needed — search is fully functional.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"b07be0dd-3dea-4db2-a51f-da7c326670a7","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.206709+00:00","summary":"","completion_summary":"Added notebook search to /api/search endpoint. All 8 content types now work: hypotheses, analyses, entities, experiments, targets, wiki pages, papers, and notebooks. The search HTML page already had notebook UI support; only the backend was missing.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"a40da0c4-1429-4aef-8abe-cdfecca3654e","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.188566+00:00","summary":"","completion_summary":"Search works end-to-end. Tested with queries 'TREM2' (86 results) and 'alzheimer' (126 results). All 7 content types return results: hypothesis, wiki_page, paper, entity, experiment, analysis, target. /search page loads at 200 in 0.25s. /api/search JSON endpoint works correctly.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"140b2022-bedf-4bac-9a07-d2f4a62cd2b6","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.173686+00:00","summary":"","completion_summary":"Verified all 7 content types (hypothesis, analysis, entity, wiki_page, experiment, target, paper) return results in /api/search. Upgraded 5 types to use FTS5 full-text search with relevance ranking and LIKE fallback. Fixed wiki_pages_fts JOIN to use rowid. Search page, analytics, and click tracking all functional.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"579f695c-f7dc-4526-a25f-9c04c3317a73","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.159312+00:00","summary":"","completion_summary":"Fixed /search page end-to-end: (1) Replaced slow LIKE queries with FTS on wiki_entities, wiki_pages, papers, hypotheses, analyses — search now <200ms vs timeouts. (2) Added missing notebook content type to search. (3) Added ?q= URL param support for direct linking. All 8 content types (hypothesis, analysis, entity, experiment, target, wiki_page, paper, notebook) now return results.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"9315f3d7-1fb3-48ba-a7e4-3d9bbbc0ea12","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.143948+00:00","summary":"","completion_summary":"Fixed wiki_page search results. Root cause: wiki_pages.id column was NULL for all 17,257 rows, causing empty results. Fix: use slug as fallback id (row['id'] or row['slug']). All 7 content types now return results: hypothesis, analysis, entity, experiment, target, wiki_page, paper.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"1e6b0a3f-6a8b-4f4c-8362-6be6e31b1464","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.128914+00:00","summary":"","completion_summary":"Fixed /search page: (1) Added DB timeout 30s and WAL mode to get_db() to prevent silent failures from concurrent lock contention. (2) Fixed wiki_page results returning as wrong type 'wiki' - now returns 'wiki_page' matching CSS. (3) Fixed paper search silently failing - removed slow abstract LIKE scan, search title only, added error logging. (4) Updated search.html JS to handle both type names. All 7 content types (hypothesis, analysis, entity, experiment, target, wiki_page, paper) now work.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"767efa67-8fe4-4574-ba99-8280fe1725c1","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.113653+00:00","summary":"","completion_summary":"Improved search to use FTS5 full-text index for wiki page search (17k+ pages now searchable). Fixed null ID issue by using slug. Added safe FTS query escaping for hyphens/apostrophes with LIKE fallback. All 7 content types verified: hypotheses, analyses, entities, wiki_pages, experiments, targets, papers. Search UI and analytics working end-to-end.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"6faefd1d-d3ff-4c0a-9382-67edae75ac1d","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.096859+00:00","summary":"","completion_summary":"Fixed /search to return all 8 content types. Added notebook search, restored wiki slug search, added wiki_page backwards compat, wrapped paper/notebook queries in try/except for resilience. All routes verified.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"b5762ffe-fd13-4fa1-82ef-3dcf4dc621f9","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.078466+00:00","summary":"","completion_summary":"Added wiki_page (17k NeuroWiki pages) and paper search to /api/search. Updated search.html with new type filters and styling. All 7 content types now searchable: hypothesis, analysis, entity, wiki_page, experiment, target, paper.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"6d014293-c1c8-42f6-b47d-143a1257f188","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.062798+00:00","summary":"","completion_summary":"Added wiki_pages (17k+), papers (1.1k+), and notebooks to /api/search endpoint. All 8 content types now searchable: hypotheses, analyses, entities, wiki pages, experiments, targets, papers, notebooks. Updated search.html with new type filters, color-coded badges, and metadata display.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"28b0ebc6-ca25-48a1-9ee3-5f38666cbe88","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.044882+00:00","summary":"","completion_summary":"Fixed search end-to-end: created search_queries table at API startup to fix 500s on analytics/click endpoints, fixed click tracking to use query params, verified all 6 content types (hypothesis, analysis, entity, experiment, target, wiki) return results","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"5d9fc91b-2a2f-4228-a1a3-8115f09cd5b2","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"archived","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":null,"updated_at":"2026-04-24T23:42:14.029269+00:00","summary":"","completion_summary":"Search page works end-to-end. API returns results across all 6 content types (hypotheses, analyses, wiki entities, experiments, targets). Type filtering works. HTML page renders results correctly with badges, descriptions, and click tracking. No code changes needed — search was already functional.","completion_notes":"","last_error":"cli-reopen-manual: reopened — task was marked 'archived' but has no task_runs row in (done/completed/success)","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"0917d0d3-277d-43b3-86b5-df614af075b0","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"done","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-18T16:46:46.695938+00:00","updated_at":"2026-04-18T16:46:46.695938+00:00","summary":"","completion_summary":"[Verify] Search page end-to-end with all content types — already resolved [task:0917d0d3-277d-43b3-86b5-df614af075b0]; [Atlas] api.py: document all valid search filter types in Query param [task:0917d0d3-277d-43b3-86b5-df614af075b0]; [Atlas] Fix search content-type filters for documentation and graph_connection [task:0917d0d3-277d-43b3-86b5-df614af075b0]","completion_notes":"Auto-completed by supervisor after successful deploy to main","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"claude","payload_json":"{\"_reset_note\": \"This task was reset after a database incident on 2026-04-17.\\n\\n**Context:** SciDEX migrated from SQLite to PostgreSQL after recurring DB\\ncorruption. Some work done during Apr 16-17 may have been lost.\\n\\n**Before starting work:**\\n1. Check if the task's goal is ALREADY satisfied (run the relevant checks)\\n2. Check `git log --all --grep=task:YOUR_TASK_ID` for prior commits\\n3. If complete, verify and mark done. If partial, continue. If not done, proceed.\\n\\n**DB change:** SciDEX now uses PostgreSQL. `get_db()` auto-detects via\\nSCIDEX_DB_BACKEND=postgres env var.\", \"_reset_at\": \"2026-04-18T06:29:22.046013+00:00\", \"_reset_from_status\": \"done\"}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":"pass","verification_notes":"Search page end-to-end with all content types — already resolved on main (bbb996ac9, caf0174e6, db6c1e62c). Verified documentation and graph_connection filters are present and working. Created spec work log entry.","task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"df826359-8b33-4756-81cb-9c56f38872b2","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.\n\n\n## REOPENED TASK — CRITICAL CONTEXT\n\nThis task was previously marked 'done' but the audit could not verify\nthe work actually landed on main. The original work may have been:\n- Lost to an orphan branch / failed push\n- Only a spec-file edit (no code changes)\n- Already addressed by other agents in the meantime\n- Made obsolete by subsequent work\n\n**Before doing anything else:**\n\n1. **Re-evaluate the task in light of CURRENT main state.** Read the\n   spec and the relevant files on origin/main NOW. The original task\n   may have been written against a state of the code that no longer\n   exists.\n\n2. **Verify the task still advances SciDEX's aims.** If the system\n   has evolved past the need for this work (different architecture,\n   different priorities), close the task with reason \"obsolete: <why>\"\n   instead of doing it.\n\n3. **Check if it's already done.** Run `git log --grep='<task-id>'`\n   and read the related commits. If real work landed, complete the\n   task with `--no-sha-check --summary 'Already done in <commit>'`.\n\n4. **Make sure your changes don't regress recent functionality.** Many\n   agents have been working on this codebase. Before committing, run\n   `git log --since='24 hours ago' -- <files-you-touch>` to see what\n   changed in your area, and verify you don't undo any of it.\n\n5. **Stay scoped.** Only do what this specific task asks for. Do not\n   refactor, do not \"fix\" unrelated issues, do not add features that\n   weren't requested. Scope creep at this point is regression risk.\n\nIf you cannot do this task safely (because it would regress, conflict\nwith current direction, or the requirements no longer apply), escalate\nvia `orchestra escalate` with a clear explanation instead of committing.\n","status":"done","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-18T15:46:36.521473+00:00","updated_at":"2026-04-18T15:46:36.521473+00:00","summary":"","completion_summary":"Already resolved: b345c1a30. Search page tool/documentation type support confirmed on main via code inspection.","completion_notes":"","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"docs/planning/specs/df826359-8b3_search_ensure_search_page_works_end_to_spec.md","provider":"any","payload_json":"{\"_reset_note\": \"This task was reset after a database incident on 2026-04-17.\\n\\n**Context:** SciDEX migrated from SQLite to PostgreSQL after recurring DB\\ncorruption. Some work done during Apr 16-17 may have been lost.\\n\\n**Before starting work:**\\n1. Check if the task's goal is ALREADY satisfied (run the relevant checks)\\n2. Check `git log --all --grep=task:YOUR_TASK_ID` for prior commits\\n3. If complete, verify and mark done. If partial, continue. If not done, proceed.\\n\\n**DB change:** SciDEX now uses PostgreSQL. `get_db()` auto-detects via\\nSCIDEX_DB_BACKEND=postgres env var.\", \"_reset_at\": \"2026-04-18T06:29:22.046013+00:00\", \"_reset_from_status\": \"done\"}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"6296e980-dee9-4400-bf24-1321dd564b7f","title":"[Search] Build unified search UI with autocomplete and type-grouped results","description":"Add a search box to the top of every SciDEX page with:\n- Real-time autocomplete/typeahead as user types (debounced, <200ms response)\n- Dropdown showing hits grouped by type: Wiki Pages, Hypotheses, Graph Nodes, Papers, etc.\n- Each result shows title, type badge, relevance score, and brief snippet\n- Click result to navigate to the appropriate detail page\n- Support keyboard navigation (up/down arrows, Enter to select)\n- Mobile-responsive design\n- Call /api/search endpoint from frontend\n- Add to nav_html() so it appears on every page\n\n\n## REOPENED TASK — CRITICAL CONTEXT\n\nThis task was previously marked 'done' but the audit could not verify\nthe work actually landed on main. The original work may have been:\n- Lost to an orphan branch / failed push\n- Only a spec-file edit (no code changes)\n- Already addressed by other agents in the meantime\n- Made obsolete by subsequent work\n\n**Before doing anything else:**\n\n1. **Re-evaluate the task in light of CURRENT main state.** Read the\n   spec and the relevant files on origin/main NOW. The original task\n   may have been written against a state of the code that no longer\n   exists.\n\n2. **Verify the task still advances SciDEX's aims.** If the system\n   has evolved past the need for this work (different architecture,\n   different priorities), close the task with reason \"obsolete: <why>\"\n   instead of doing it.\n\n3. **Check if it's already done.** Run `git log --grep='<task-id>'`\n   and read the related commits. If real work landed, complete the\n   task with `--no-sha-check --summary 'Already done in <commit>'`.\n\n4. **Make sure your changes don't regress recent functionality.** Many\n   agents have been working on this codebase. Before committing, run\n   `git log --since='24 hours ago' -- <files-you-touch>` to see what\n   changed in your area, and verify you don't undo any of it.\n\n5. **Stay scoped.** Only do what this specific task asks for. Do not\n   refactor, do not \"fix\" unrelated issues, do not add features that\n   weren't requested. Scope creep at this point is regression risk.\n\nIf you cannot do this task safely (because it would regress, conflict\nwith current direction, or the requirements no longer apply), escalate\nvia `orchestra escalate` with a clear explanation instead of committing.\n","status":"done","priority":90,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-18T14:35:31.913658+00:00","updated_at":"2026-04-18T14:35:31.913658+00:00","summary":"","completion_summary":"[UI] Nav search: add type-grouped results, relevance scores, keyboard navigation [task:6296e980-dee9-4400-bf24-1321dd564b7f]","completion_notes":"Auto-completed by supervisor after successful deploy to main","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{\"_reset_note\": \"This task was reset after a database incident on 2026-04-17.\\n\\n**Context:** SciDEX migrated from SQLite to PostgreSQL after recurring DB\\ncorruption. Some work done during Apr 16-17 may have been lost.\\n\\n**Before starting work:**\\n1. Check if the task's goal is ALREADY satisfied (run the relevant checks)\\n2. Check `git log --all --grep=task:YOUR_TASK_ID` for prior commits\\n3. If complete, verify and mark done. If partial, continue. If not done, proceed.\\n\\n**DB change:** SciDEX now uses PostgreSQL. `get_db()` auto-detects via\\nSCIDEX_DB_BACKEND=postgres env var.\", \"_reset_at\": \"2026-04-18T06:29:22.046013+00:00\", \"_reset_from_status\": \"done\"}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"da3e5cb4-b369-40b0-b3bd-311df4d67fe9","title":"[Search] Implement FTS5 full-text search index for hypotheses, wiki, and papers","description":"Create FTS5 virtual tables indexing title+content for hypotheses, wiki_pages, and papers. Build /api/search endpoint combining FTS results across types. Support prefix search and result snippets.\n\n\n## REOPENED TASK — CRITICAL CONTEXT\n\nThis task was previously marked 'done' but the audit could not verify\nthe work actually landed on main. The original work may have been:\n- Lost to an orphan branch / failed push\n- Only a spec-file edit (no code changes)\n- Already addressed by other agents in the meantime\n- Made obsolete by subsequent work\n\n**Before doing anything else:**\n\n1. **Re-evaluate the task in light of CURRENT main state.** Read the\n   spec and the relevant files on origin/main NOW. The original task\n   may have been written against a state of the code that no longer\n   exists.\n\n2. **Verify the task still advances SciDEX's aims.** If the system\n   has evolved past the need for this work (different architecture,\n   different priorities), close the task with reason \"obsolete: <why>\"\n   instead of doing it.\n\n3. **Check if it's already done.** Run `git log --grep='<task-id>'`\n   and read the related commits. If real work landed, complete the\n   task with `--no-sha-check --summary 'Already done in <commit>'`.\n\n4. **Make sure your changes don't regress recent functionality.** Many\n   agents have been working on this codebase. Before committing, run\n   `git log --since='24 hours ago' -- <files-you-touch>` to see what\n   changed in your area, and verify you don't undo any of it.\n\n5. **Stay scoped.** Only do what this specific task asks for. Do not\n   refactor, do not \"fix\" unrelated issues, do not add features that\n   weren't requested. Scope creep at this point is regression risk.\n\nIf you cannot do this task safely (because it would regress, conflict\nwith current direction, or the requirements no longer apply), escalate\nvia `orchestra escalate` with a clear explanation instead of committing.\n","status":"done","priority":88,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-20T22:50:24.144922+00:00","updated_at":"2026-04-20T22:50:24.144922+00:00","summary":"","completion_summary":"[Verify] FTS5 search already on main — verified not needed [task:da3e5cb4-b369-40b0-b3bd-311df4d67fe9]","completion_notes":"Auto-completed by supervisor after successful deploy to main","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"claude","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"d29ecdae-4f3e-405c-a394-f33437691e30","title":"[Search] Federated search shim - one query, many platforms","description":"/api/v2/federated-search fans queries to PubMed, OpenAlex, ResearchHub, SciDEX in parallel; merges with DOI dedup and per-source weights.","status":"done","priority":86,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-28T01:43:52.538276+00:00","updated_at":"2026-04-28T01:43:52.538276+00:00","summary":"","completion_summary":"[Atlas] Federated search shim — work log [task:d29ecdae-4f3e-405c-a394-f33437691e30]; [Atlas] Federated search shim: fan one query to PubMed, OpenAlex, ResearchHub, SciDEX [task:d29ecdae-4f3e-405c-a394-f33437691e30]","completion_notes":"Auto-completed by supervisor after successful deploy to main","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"docs/planning/specs/q-fed-federated-search-shim_spec.md","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"84f53d13-9400-4657-8227-4a0d06e1f6d7","title":"[Atlas] Personal recommendations from search history + click stream","description":"Per-session interest vector from clicked-artifact embeddings; 'Recommended for you' on /dashboard.","status":"done","priority":86,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-27T22:34:54.404038+00:00","updated_at":"2026-04-27T22:34:54.404038+00:00","summary":"","completion_summary":"[Atlas] Personal recommendations from search history and click stream","completion_notes":"Auto-completed by supervisor after successful deploy to main","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"docs/planning/specs/q-srch-personal-recommendations_spec.md","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"3ded3c74-a6f5-4858-9c70-95667817cd21","title":"[Atlas] Negation-aware search - hypotheses NOT involving microglia","description":"Query parser supporting -term, -field:term, -entity:NAME (synonym-expanded); first-class boolean negation.","status":"done","priority":85,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-27T23:27:53.573759+00:00","updated_at":"2026-04-27T23:27:53.573759+00:00","summary":"","completion_summary":"[Atlas] Negation-aware search: -term, -entity:NAME, plain-English NOT (api.py) [task:3ded3c74-a6f5-4858-9c70-95667817cd21]","completion_notes":"Auto-completed by supervisor after successful deploy to main","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"docs/planning/specs/q-srch-negation-aware_spec.md","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"c4480b37-e296-4918-af3c-8dd7fd2c2d22","title":"[Search] Create full-text search index for fast keyword matching","description":"Implement SQLite FTS5 full-text search as a fast fallback/complement to vector search:\n- Create FTS5 virtual tables for hypotheses, wiki_pages, papers, analyses\n- Index title, content/description, and key metadata fields\n- Create /api/search/fts endpoint for keyword search\n- Combine FTS results with vector search results in the main /api/search endpoint\n- FTS should handle exact matches, prefix search, and boolean queries\n- Keep FTS indexes in sync with main tables using triggers\n\n\n## REOPENED TASK — CRITICAL CONTEXT\n\nThis task was previously marked 'done' but the audit could not verify\nthe work actually landed on main. The original work may have been:\n- Lost to an orphan branch / failed push\n- Only a spec-file edit (no code changes)\n- Already addressed by other agents in the meantime\n- Made obsolete by subsequent work\n\n**Before doing anything else:**\n\n1. **Re-evaluate the task in light of CURRENT main state.** Read the\n   spec and the relevant files on origin/main NOW. The original task\n   may have been written against a state of the code that no longer\n   exists.\n\n2. **Verify the task still advances SciDEX's aims.** If the system\n   has evolved past the need for this work (different architecture,\n   different priorities), close the task with reason \"obsolete: <why>\"\n   instead of doing it.\n\n3. **Check if it's already done.** Run `git log --grep='<task-id>'`\n   and read the related commits. If real work landed, complete the\n   task with `--no-sha-check --summary 'Already done in <commit>'`.\n\n4. **Make sure your changes don't regress recent functionality.** Many\n   agents have been working on this codebase. Before committing, run\n   `git log --since='24 hours ago' -- <files-you-touch>` to see what\n   changed in your area, and verify you don't undo any of it.\n\n5. **Stay scoped.** Only do what this specific task asks for. Do not\n   refactor, do not \"fix\" unrelated issues, do not add features that\n   weren't requested. Scope creep at this point is regression risk.\n\nIf you cannot do this task safely (because it would regress, conflict\nwith current direction, or the requirements no longer apply), escalate\nvia `orchestra escalate` with a clear explanation instead of committing.\n","status":"done","priority":85,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-19T03:26:24.027251+00:00","updated_at":"2026-04-19T03:26:24.027251+00:00","summary":"","completion_summary":"[Search] Fix FTS5 SQL syntax in /api/search and add missing triggers; update work log [task:c4480b37-e296-4918-af3c-8dd7fd2c2d22]","completion_notes":"Auto-completed by supervisor after successful deploy to main","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{\"_reset_note\": \"This task was reset after a database incident on 2026-04-17.\\n\\n**Context:** SciDEX migrated from SQLite to PostgreSQL after recurring DB\\ncorruption. Some work done during Apr 16-17 may have been lost.\\n\\n**Before starting work:**\\n1. Check if the task's goal is ALREADY satisfied (run the relevant checks)\\n2. Check `git log --all --grep=task:YOUR_TASK_ID` for prior commits\\n3. If complete, verify and mark done. If partial, continue. If not done, proceed.\\n\\n**DB change:** SciDEX now uses PostgreSQL. `get_db()` auto-detects via\\nSCIDEX_DB_BACKEND=postgres env var.\", \"_reset_at\": \"2026-04-18T06:29:22.046013+00:00\", \"_reset_from_status\": \"done\"}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"a612fcf9-c135-4ff6-a80c-32b4e5b3f07a","title":"[Search] Semantic search quality audit: verify search returns relevant results for 10 key neurodegeneration queries and fix index gaps","description":"Comprehensive audit of SciDEX search quality across 10 critical neurodegeneration queries, identifying and fixing index gaps.\n\nSteps:\n1. Test 10 queries via `curl -s 'http://localhost:8000/api/search?q={query}&limit=10'`:\n   - \"GBA1 lysosome Parkinson\"\n   - \"LRRK2 kinase inhibitor\"\n   - \"tau phosphorylation tauopathy\"\n   - \"alpha-synuclein aggregation\"\n   - \"TREM2 microglia neuroinflammation\"\n   - \"mitochondrial dysfunction neuron\"\n   - \"autophagy lysosome degradation\"\n   - \"axon degeneration pruning\"\n   - \"blood-brain barrier permeability\"\n   - \"neuroinflammation NLRP3 inflammasome\"\n2. For each query, verify: >= 5 results returned, top 3 results are relevant, results include multiple content types (wiki, hypothesis, analysis)\n3. For any query with < 5 results or poor relevance: check search_vector on affected tables, rebuild if stale\n4. Document precision@5 for each query (how many of top 5 are truly relevant)\n\nAcceptance criteria:\n- All 10 queries tested and results documented\n- 8 of 10 queries return >= 5 relevant results\n- precision@5 > 0.6 for at least 8 queries\n- Any stale search indexes rebuilt","status":"done","priority":83,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-28T06:04:40.536631+00:00","updated_at":"2026-04-28T06:04:40.536631+00:00","summary":"","completion_summary":"[Verify] Search quality audit PASS [task:a612fcf9-c135-4ff6-a80c-32b4e5b3f07a]","completion_notes":"Auto-completed by supervisor after successful deploy to main","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":"pass","verification_notes":"[Verify] Search quality audit PASS [task:a612fcf9-c135-4ff6-a80c-32b4e5b3f07a]","task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"6de816e4-b169-4242-a5c2-17f505296b2a","title":"[Forge] Identify 25 papers with conflicting identifier metadata","description":"Paper identifier conflicts can fragment citation counts and cache lookups across providers.\n\n## Acceptance criteria\n\n- 25 papers are checked for DOI/PMID/PMC/external_ids consistency\n- Confirmed conflicts are corrected or documented with provider evidence\n- No duplicate paper rows are introduced\n\n## Approach\n\n1. Select papers with multiple external_ids, missing DOI with PMID, or sparse metadata.\n2. Cross-check existing paper_cache/provider records.\n3. Persist corrections or no-conflict rationale and verify lookup behavior.\n\nGenerated by the quest-engine low-queue cycle from live DB gap checks; avoid placeholder content and document no-op decisions when evidence is insufficient.\n","status":"done","priority":80,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-27T06:43:38.738111+00:00","updated_at":"2026-04-27T06:43:38.738111+00:00","summary":"","completion_summary":"[Forge] Add spec for paper identifier conflicts task [task:6de816e4-b169-4242-a5c2-17f505296b2a]; [Forge] Identify and fix 25 papers with conflicting identifier metadata [task:6de816e4-b169-4242-a5c2-17f505296b2a]","completion_notes":"Auto-completed by supervisor after successful deploy to main","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"docs/planning/specs/quest_engine_paper_abstract_backfill_spec.md","provider":"any","payload_json":"{\"requirements\": {\"analysis\": 6, \"coding\": 5}}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"e28d765c-bace-4784-8bd6-5313b2edb9bf","title":"[Search] Rebuild search indexes and verify cross-type search quality","description":"IMPORTANT: Before implementing, verify this work hasn't already been done. Check api.py routes, git log, and the live site. If already implemented, mark complete with summary explaining what already exists.\n\nEnsure FTS indexes are current for all content types. Test queries that span hypotheses, papers, wiki, and experiments.","status":"done","priority":80,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-19T10:33:04.664428+00:00","updated_at":"2026-04-19T10:33:04.664428+00:00","summary":"","completion_summary":"PARTIAL — hypotheses_fts missing 164 rows, wiki_pages_fts missing 14924 rows. analyses/papers/kb/gaps/notebooks/wiki_entities/paper_figures FTS all correct. DB has 11 integrity errors. API not currently running.","completion_notes":"Verification found PARTIAL pass: hypotheses_fts missing 164 rows (23.5%), wiki_pages_fts missing 14924 rows (85%). Analyses, papers, knowledge_gaps, notebooks, wiki_entities, and paper_figures FTS are all correctly synced. DB corruption (11 integrity errors) and API being in auto-restart loop also documented. Rebuild script ready at scidex/atlas/rebuild_fts.py but requires API downtime.","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"claude","payload_json":"{\"requirements\": {\"coding\": 8, \"reasoning\": 8, \"analysis\": 8}, \"completion_shas\": [\"58708b8b5\"], \"completion_shas_checked_at\": \"2026-04-17T06:53:44.265421+00:00\", \"_reset_note\": \"This task was reset after a database incident on 2026-04-17.\\n\\n**Context:** SciDEX migrated from SQLite to PostgreSQL after recurring DB\\ncorruption. Some work done during Apr 16-17 may have been lost.\\n\\n**Before starting work:**\\n1. Check if the task's goal is ALREADY satisfied (run the relevant checks)\\n2. Check `git log --all --grep=task:YOUR_TASK_ID` for prior commits\\n3. If complete, verify and mark done. If partial, continue. If not done, proceed.\\n\\n**DB change:** SciDEX now uses PostgreSQL. `get_db()` auto-detects via\\nSCIDEX_DB_BACKEND=postgres env var.\", \"_reset_at\": \"2026-04-18T06:29:22.046013+00:00\", \"_reset_from_status\": \"done\"}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":"partial","verification_notes":"PARTIAL — hypotheses_fts missing 164 rows, wiki_pages_fts missing 14924 rows. analyses/papers/kb/gaps/notebooks/wiki_entities/paper_figures FTS all correct. DB has 11 integrity errors. API not currently running.","task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"d729afeb-8847-44ef-ad2a-aff64611b3f3","title":"[Search] Rebuild search indexes and verify cross-type search quality","description":"IMPORTANT: Before implementing, verify this work hasn't already been done. Check api.py routes, git log, and the live site. If already implemented, mark complete with summary explaining what already exists.\n\nEnsure FTS indexes are current for all content types. Test queries that span hypotheses, papers, wiki, and experiments.\n\n\n## REOPENED TASK — CRITICAL CONTEXT\n\nThis task was previously marked 'done' but the audit could not verify\nthe work actually landed on main. The original work may have been:\n- Lost to an orphan branch / failed push\n- Only a spec-file edit (no code changes)\n- Already addressed by other agents in the meantime\n- Made obsolete by subsequent work\n\n**Before doing anything else:**\n\n1. **Re-evaluate the task in light of CURRENT main state.** Read the\n   spec and the relevant files on origin/main NOW. The original task\n   may have been written against a state of the code that no longer\n   exists.\n\n2. **Verify the task still advances SciDEX's aims.** If the system\n   has evolved past the need for this work (different architecture,\n   different priorities), close the task with reason \"obsolete: <why>\"\n   instead of doing it.\n\n3. **Check if it's already done.** Run `git log --grep='<task-id>'`\n   and read the related commits. If real work landed, complete the\n   task with `--no-sha-check --summary 'Already done in <commit>'`.\n\n4. **Make sure your changes don't regress recent functionality.** Many\n   agents have been working on this codebase. Before committing, run\n   `git log --since='24 hours ago' -- <files-you-touch>` to see what\n   changed in your area, and verify you don't undo any of it.\n\n5. **Stay scoped.** Only do what this specific task asks for. Do not\n   refactor, do not \"fix\" unrelated issues, do not add features that\n   weren't requested. Scope creep at this point is regression risk.\n\nIf you cannot do this task safely (because it would regress, conflict\nwith current direction, or the requirements no longer apply), escalate\nvia `orchestra escalate` with a clear explanation instead of committing.\n","status":"done","priority":80,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-19T10:26:24.474782+00:00","updated_at":"2026-04-19T10:26:24.474782+00:00","summary":"","completion_summary":"PASS — kg+nb FTS verified in sync (3383/542 rows), api.py integration confirmed, partial DB corruption does not affect FTS, local API unreachable (infra issue)","completion_notes":"Verification run 2026-04-19: FTS tables for knowledge_gaps (3383 rows) and notebooks (542 rows) confirmed in sync with source tables. api.py has FTS calls for both types at lines 14094 and 14109. rebuild_fts.py on main includes both tables. Local API not reachable (infrastructure issue), but FTS confirmed functional via direct DB queries. ci_verify_search_indexes.py deprecated (moved to scripts/deprecated/ per commit 9c5929459). Two source/FTS mismatches (hypotheses 697vs533, wiki_pages 17574vs2650) are pre-existing backfill gaps, not FTS implementation bugs.","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"docs/planning/specs/512d8d01_qe-search-rebuild_spec.md","provider":"claude","payload_json":"{\"requirements\": {\"coding\": 7, \"reasoning\": 6, \"safety\": 7}, \"_reset_note\": \"This task was reset after a database incident on 2026-04-17.\\n\\n**Context:** SciDEX migrated from SQLite to PostgreSQL after recurring DB\\ncorruption. Some work done during Apr 16-17 may have been lost.\\n\\n**Before starting work:**\\n1. Check if the task's goal is ALREADY satisfied (run the relevant checks)\\n2. Check `git log --all --grep=task:YOUR_TASK_ID` for prior commits\\n3. If complete, verify and mark done. If partial, continue. If not done, proceed.\\n\\n**DB change:** SciDEX now uses PostgreSQL. `get_db()` auto-detects via\\nSCIDEX_DB_BACKEND=postgres env var.\", \"_reset_at\": \"2026-04-18T06:29:22.046013+00:00\", \"_reset_from_status\": \"done\"}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":"pass","verification_notes":"PASS — kg+nb FTS verified in sync (3383/542 rows), api.py integration confirmed, partial DB corruption does not affect FTS, local API unreachable (infra issue)","task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"eaaaac6f-4374-402d-bf89-329ab675a369","title":"[Search] Rebuild search indexes and verify cross-type search quality","description":"Ensure FTS indexes are current for all content types. Test queries that span hypotheses, papers, wiki, and experiments.\n\n\n## REOPENED TASK — CRITICAL CONTEXT\n\nThis task was previously marked 'done' but the audit could not verify\nthe work actually landed on main. The original work may have been:\n- Lost to an orphan branch / failed push\n- Only a spec-file edit (no code changes)\n- Already addressed by other agents in the meantime\n- Made obsolete by subsequent work\n\n**Before doing anything else:**\n\n1. **Re-evaluate the task in light of CURRENT main state.** Read the\n   spec and the relevant files on origin/main NOW. The original task\n   may have been written against a state of the code that no longer\n   exists.\n\n2. **Verify the task still advances SciDEX's aims.** If the system\n   has evolved past the need for this work (different architecture,\n   different priorities), close the task with reason \"obsolete: <why>\"\n   instead of doing it.\n\n3. **Check if it's already done.** Run `git log --grep='<task-id>'`\n   and read the related commits. If real work landed, complete the\n   task with `--no-sha-check --summary 'Already done in <commit>'`.\n\n4. **Make sure your changes don't regress recent functionality.** Many\n   agents have been working on this codebase. Before committing, run\n   `git log --since='24 hours ago' -- <files-you-touch>` to see what\n   changed in your area, and verify you don't undo any of it.\n\n5. **Stay scoped.** Only do what this specific task asks for. Do not\n   refactor, do not \"fix\" unrelated issues, do not add features that\n   weren't requested. Scope creep at this point is regression risk.\n\nIf you cannot do this task safely (because it would regress, conflict\nwith current direction, or the requirements no longer apply), escalate\nvia `orchestra escalate` with a clear explanation instead of committing.\n","status":"done","priority":80,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-19T10:15:33.265151+00:00","updated_at":"2026-04-19T10:15:33.265151+00:00","summary":"","completion_summary":"Rebuilt 5 of 7 FTS indexes (analyses, papers, knowledge_gaps, notebooks, wiki_entities fully synced; hypotheses and wiki_pages partial due to pre-existing DB corruption). Cross-type FTS search verified working for all 7 content types. Live API down due to missing venv (infra issue).","completion_notes":"","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"claude","payload_json":"{\"requirements\": {\"coding\": 8, \"reasoning\": 8, \"analysis\": 8}, \"_reset_note\": \"This task was reset after a database incident on 2026-04-17.\\n\\n**Context:** SciDEX migrated from SQLite to PostgreSQL after recurring DB\\ncorruption. Some work done during Apr 16-17 may have been lost.\\n\\n**Before starting work:**\\n1. Check if the task's goal is ALREADY satisfied (run the relevant checks)\\n2. Check `git log --all --grep=task:YOUR_TASK_ID` for prior commits\\n3. If complete, verify and mark done. If partial, continue. If not done, proceed.\\n\\n**DB change:** SciDEX now uses PostgreSQL. `get_db()` auto-detects via\\nSCIDEX_DB_BACKEND=postgres env var.\", \"_reset_at\": \"2026-04-18T06:29:22.046013+00:00\", \"_reset_from_status\": \"done\"}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":"pass","verification_notes":"Rebuilt 5 of 7 FTS indexes (analyses, papers, knowledge_gaps, notebooks, wiki_entities fully synced; hypotheses and wiki_pages partial due to pre-existing DB corruption). Cross-type FTS search verified working for all 7 content types. Live API down due to missing venv (infra issue).","task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"56b7fcc3-1c30-4c0b-9f00-76d11b985f8e","title":"[Search] Implement knowledge graph query integration for search","description":"Enhance search to also query the knowledge graph directly:\n- When user searches for an entity, also traverse KG edges to find related entities\n- Show \"Graph Connections\" as a result category alongside wiki/hypothesis/paper results\n- For entity searches, show a mini KG neighborhood visualization in results\n- Integrate with Neo4j if available, fall back to SQLite knowledge_edges table\n- Support path queries like \"how is X related to Y\"\n\n\n## REOPENED TASK — CRITICAL CONTEXT\n\nThis task was previously marked 'done' but the audit could not verify\nthe work actually landed on main. The original work may have been:\n- Lost to an orphan branch / failed push\n- Only a spec-file edit (no code changes)\n- Already addressed by other agents in the meantime\n- Made obsolete by subsequent work\n\n**Before doing anything else:**\n\n1. **Re-evaluate the task in light of CURRENT main state.** Read the\n   spec and the relevant files on origin/main NOW. The original task\n   may have been written against a state of the code that no longer\n   exists.\n\n2. **Verify the task still advances SciDEX's aims.** If the system\n   has evolved past the need for this work (different architecture,\n   different priorities), close the task with reason \"obsolete: <why>\"\n   instead of doing it.\n\n3. **Check if it's already done.** Run `git log --grep='<task-id>'`\n   and read the related commits. If real work landed, complete the\n   task with `--no-sha-check --summary 'Already done in <commit>'`.\n\n4. **Make sure your changes don't regress recent functionality.** Many\n   agents have been working on this codebase. Before committing, run\n   `git log --since='24 hours ago' -- <files-you-touch>` to see what\n   changed in your area, and verify you don't undo any of it.\n\n5. **Stay scoped.** Only do what this specific task asks for. Do not\n   refactor, do not \"fix\" unrelated issues, do not add features that\n   weren't requested. Scope creep at this point is regression risk.\n\nIf you cannot do this task safely (because it would regress, conflict\nwith current direction, or the requirements no longer apply), escalate\nvia `orchestra escalate` with a clear explanation instead of committing.\n","status":"done","priority":80,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-19T05:36:32.232568+00:00","updated_at":"2026-04-19T05:36:32.232568+00:00","summary":"","completion_summary":"KG search integration already on origin/main at api.py:14115-14212 and site/search.html - includes entity edge traversal, graph_connection result type, path queries (how is X related to Y), and KG neighborhood links","completion_notes":"","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{\"requirements\": {\"coding\": 5, \"analysis\": 5}, \"_reset_note\": \"This task was reset after a database incident on 2026-04-17.\\n\\n**Context:** SciDEX migrated from SQLite to PostgreSQL after recurring DB\\ncorruption. Some work done during Apr 16-17 may have been lost.\\n\\n**Before starting work:**\\n1. Check if the task's goal is ALREADY satisfied (run the relevant checks)\\n2. Check `git log --all --grep=task:YOUR_TASK_ID` for prior commits\\n3. If complete, verify and mark done. If partial, continue. If not done, proceed.\\n\\n**DB change:** SciDEX now uses PostgreSQL. `get_db()` auto-detects via\\nSCIDEX_DB_BACKEND=postgres env var.\", \"_reset_at\": \"2026-04-18T06:29:22.046013+00:00\", \"_reset_from_status\": \"done\"}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"8f8defa6-0d78-44a1-975c-8ac67c7e28ed","title":"[Search] Audit search quality for 25 gene-disease queries — fix ranking gaps","description":"Run 25 representative gene-disease search queries (e.g., \"TREM2 Alzheimer\", \"LRRK2 Parkinson\", \"TDP-43 ALS\") against the /api/search endpoint. For each query: (1) record the top-10 results, (2) identify missing expected pages (e.g., the gene's wiki page should rank #1), (3) if the expected page isn't in top-5, diagnose why (missing search_vector, low rank weight, wrong entity_type), (4) apply fixes — update search_index entries, boost gene-entity results for gene queries. Acceptance: 20/25 queries return the gene's wiki page in top 3 results.","status":"done","priority":78,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-26T15:05:59.281276+00:00","updated_at":"2026-04-26T15:05:59.281276+00:00","summary":"","completion_summary":"[Atlas] Fix wiki_pages FTS to use PostgreSQL tsvector + 2x gene entity boost","completion_notes":"Auto-completed by supervisor after successful deploy to main","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{\"completion_shas\": [\"3c74948a1\"], \"completion_shas_checked_at\": \"\"}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":"pass","verification_notes":"[Atlas] Fix wiki_pages FTS to use PostgreSQL tsvector + 2x gene entity boost","task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"5d2d966f-f802-4562-98ee-45efd797159e","title":"[Search] Reindex 300 recently-updated wiki pages in search_index","description":"The search_index may be stale for recently updated wiki pages. Query wiki_pages WHERE updated_at > NOW() - INTERVAL '14 days' and check which of those have stale or missing search_index entries. For each of up to 300 pages: (1) extract searchable text from title + content_md, (2) upsert a search_index row with the page's slug, title, content excerpt, entity_type, and full-text search vector. Run ANALYZE on the table after bulk update. Acceptance: 300 wiki pages confirmed indexed with updated search_vector timestamps.","status":"done","priority":75,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-26T16:22:11.828041+00:00","updated_at":"2026-04-26T16:22:11.828041+00:00","summary":"","completion_summary":"[Atlas] Reindex 300 stale wiki pages in search_index [task:5d2d966f-f802-4562-98ee-45efd797159e]","completion_notes":"Auto-completed by supervisor after successful deploy to main","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"8f41e7ad-1663-41b7-b592-0c1d79fee643","title":"[Search] Index 150 hypotheses missing from search_index in full-text search","description":"Many hypotheses may not be discoverable via /api/search because they're not in the search_index. Query hypotheses LEFT JOIN search_index to find gaps. For each unindexed hypothesis: (1) extract title, description, target_gene, disease, mechanism_category, (2) create a search_index entry with appropriate content vector, entity_type='hypothesis', (3) ensure the entry links back to the hypothesis page URL. Acceptance: 150 hypotheses confirmed in search_index with working search retrieval verified by spot-checking 5 queries.","status":"done","priority":72,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-26T15:47:35.810902+00:00","updated_at":"2026-04-26T15:47:35.810902+00:00","summary":"","completion_summary":"[Search] Fix hypothesis/analysis/gap/notebook search in api.py — use PostgreSQL search_vector [task:8f41e7ad-1663-41b7-b592-0c1d79fee643]","completion_notes":"Auto-completed by supervisor after successful deploy to main","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"3db05397-618a-4e50-b568-c6b882a24a4c","title":"[Search] Ensure /search page works end-to-end with all content types","description":"Verify search returns results for hypotheses, analyses, wiki pages, entities, experiments, and targets. Fix any missing content types.","status":"done","priority":70,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-25T23:43:22.026433+00:00","updated_at":"2026-04-25T23:43:22.026433+00:00","summary":"","completion_summary":"Task `3db05397-618a-4e50-b568-c6b882a24a4c` is complete.","completion_notes":"Auto-release: non-recurring task produced no commits this iteration; requeuing for next cycle","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":"pass","verification_notes":"Already addressed by 11e36be7e: /search route and /api/search were fixed to return all content types (hypotheses, analyses, wiki pages, experiments, targets). Verified working at current HEAD.","task_type":"one_shot","pr_links":[],"commit_links":[]},{"id":"b5053347-091e-46e8-a9d1-f4521e633a91","title":"[Search] Build search analytics and relevance tuning","description":"Track and improve search quality:\n- Log all search queries, results shown, results clicked (click-through rate)\n- Create search_queries table with query, timestamp, result_count, clicked_result\n- Build /api/search/analytics endpoint for search quality metrics\n- Implement relevance score tuning based on click-through data\n- Show popular searches and trending entities on the search page\n- Create a /search page with advanced filtering (by type, date range, score threshold)\n\n\n## REOPENED TASK — CRITICAL CONTEXT\n\nThis task was previously marked 'done' but the audit could not verify\nthe work actually landed on main. The original work may have been:\n- Lost to an orphan branch / failed push\n- Only a spec-file edit (no code changes)\n- Already addressed by other agents in the meantime\n- Made obsolete by subsequent work\n\n**Before doing anything else:**\n\n1. **Re-evaluate the task in light of CURRENT main state.** Read the\n   spec and the relevant files on origin/main NOW. The original task\n   may have been written against a state of the code that no longer\n   exists.\n\n2. **Verify the task still advances SciDEX's aims.** If the system\n   has evolved past the need for this work (different architecture,\n   different priorities), close the task with reason \"obsolete: <why>\"\n   instead of doing it.\n\n3. **Check if it's already done.** Run `git log --grep='<task-id>'`\n   and read the related commits. If real work landed, complete the\n   task with `--no-sha-check --summary 'Already done in <commit>'`.\n\n4. **Make sure your changes don't regress recent functionality.** Many\n   agents have been working on this codebase. Before committing, run\n   `git log --since='24 hours ago' -- <files-you-touch>` to see what\n   changed in your area, and verify you don't undo any of it.\n\n5. **Stay scoped.** Only do what this specific task asks for. Do not\n   refactor, do not \"fix\" unrelated issues, do not add features that\n   weren't requested. Scope creep at this point is regression risk.\n\nIf you cannot do this task safely (because it would regress, conflict\nwith current direction, or the requirements no longer apply), escalate\nvia `orchestra escalate` with a clear explanation instead of committing.\n","status":"done","priority":70,"frequency":"","max_iterations":null,"assigned_slot":"","started_at":null,"completed_at":"2026-04-20T16:00:53.512415+00:00","updated_at":"2026-04-20T16:00:53.512415+00:00","summary":"","completion_summary":"Verified: search analytics already implemented on main in commit fa415ff62. Added verification note to spec.","completion_notes":"All acceptance criteria verified met on origin/main: search_queries table exists, /api/search/analytics returns 200, /search page has advanced filters. Task ID was missing from original commit message (fa415ff62), but work is done.","last_error":"","time_estimate_hours":0.0,"completion_count":0,"spec_path":"","provider":"any","payload_json":"{\"_reset_note\": \"This task was reset after a database incident on 2026-04-17.\\n\\n**Context:** SciDEX migrated from SQLite to PostgreSQL after recurring DB\\ncorruption. Some work done during Apr 16-17 may have been lost.\\n\\n**Before starting work:**\\n1. Check if the task's goal is ALREADY satisfied (run the relevant checks)\\n2. Check `git log --all --grep=task:YOUR_TASK_ID` for prior commits\\n3. If complete, verify and mark done. If partial, continue. If not done, proceed.\\n\\n**DB change:** SciDEX now uses PostgreSQL. `get_db()` auto-detects via\\nSCIDEX_DB_BACKEND=postgres env var.\", \"_reset_at\": \"2026-04-18T06:29:22.046013+00:00\", \"_reset_from_status\": \"done\"}","pr_links_json":"[]","commit_links_json":"[]","merge_commit_sha":null,"merge_verified_at":null,"verification_result":null,"verification_notes":null,"task_type":"one_shot","pr_links":[],"commit_links":[]}],"reviews":[{"task_count":1,"total_tokens":50000.0,"total_cost":0.15,"output_score":64298.9,"efficiency_rating":"efficient","reviewed_at":"2026-04-20T09:13:25.817325-07:00"}],"effectiveness":{"task_count":1,"total_lines_added":0,"total_lines_removed":0,"total_files_modified":0,"total_hypotheses":440,"total_kg_edges":634971,"total_papers":14735,"total_tokens":50000.0,"total_duration":1270494.351109,"avg_impact":3214945.0,"avg_effectiveness":64298.9},"prs":[],"commits":[{"hash":"e47fd49f8","message":"Squash merge: orchestra/task/80ffb77b-quest-engine-generate-tasks-from-quests (117 commits) (#179)","date":"2026-04-26"},{"hash":"df6838cbd","message":"Squash merge: orchestra/task/80ffb77b-quest-engine-generate-tasks-from-quests (116 commits) (#177)","date":"2026-04-26"},{"hash":"a85582ebf","message":"[Search] Fix hypothesis/analysis/gap/notebook search in api.py — use PostgreSQL search_vector [task:8f41e7ad-1663-41b7-b592-0c1d79fee643] (#145)","date":"2026-04-26"},{"hash":"0d3efb20a","message":"[Search] Fix FTS5 SQL syntax in /api/search and add missing triggers; update work log [task:c4480b37-e296-4918-af3c-8dd7fd2c2d22]","date":"2026-04-18"},{"hash":"479342f17","message":"[Search] Verify search analytics task complete; add task ID to work log [task:b5053347-091e-46e8-a9d1-f4521e633a91]","date":"2026-04-17"},{"hash":"5aa851373","message":"[Search] Add knowledge graph query integration to search (api.py, site/search.html) [task:56b7fcc3-1c30-4c0b-9f00-76d11b985f8e]","date":"2026-04-16"},{"hash":"54828acad","message":"[Search] Update FTS task spec work log with merge gate fix [task:c4480b37-e296-4918-af3c-8dd7fd2c2d22]","date":"2026-04-16"},{"hash":"214b5ff78","message":"[Search] api.py: Add FTS5 triggers for hypotheses and /api/search/fts endpoint [task:c4480b37-e296-4918-af3c-8dd7fd2c2d22]","date":"2026-04-16"},{"hash":"fc2bfb763","message":"[Search] Update spec work log - verify gap search working [task:f557e9ea-4f23-40c0-a165-27deeaf5fbec]","date":"2026-04-15"},{"hash":"d833c9f29","message":"[Search] Add /api/search/stats endpoint for index statistics [task:da200fbd-27ee-47f4-b4c6-9cd896785350]","date":"2026-04-14"},{"hash":"b8fb73a9f","message":"[Search] Fix undefined 'sem_types' variable in /api/search - enables semantic search with type filters [task:da200fbd-27ee-47f4-b4c6-9cd896785350]","date":"2026-04-14"},{"hash":"c5da71ef8","message":"[Search] Update 8c3eb862 spec: document 2s timeout fix, live benchmarks [task:8c3eb862-14df-4e69-bfc4-7e2739e859da]","date":"2026-04-14"},{"hash":"fb6be77de","message":"[Search] Add 2s timeout to semantic_search in /api/search — degrades gracefully to FTS-only [task:8c3eb862-14df-4e69-bfc4-7e2739e859da]","date":"2026-04-14"},{"hash":"e8ddbe492","message":"[Search] Update 8c3eb862 spec: document 2s timeout fix, live benchmarks [task:8c3eb862-14df-4e69-bfc4-7e2739e859da]","date":"2026-04-14"},{"hash":"8fce1c633","message":"[Search] Add 2s timeout to semantic_search in /api/search — degrades gracefully to FTS-only [task:8c3eb862-14df-4e69-bfc4-7e2739e859da]","date":"2026-04-14"},{"hash":"932084be3","message":"[Search] Mark df826359 spec as completed — work already on main in b345c1a30 [task:f557e9ea-4f23-40c0-a165-27deeaf5fbec]","date":"2026-04-13"},{"hash":"2f416fc29","message":"[Search] Close 8c3eb862: FTS5 BM25 already on main, sub-500ms confirmed [task:8c3eb862-14df-4e69-bfc4-7e2739e859da]","date":"2026-04-13"},{"hash":"f2f4f63fc","message":"[Search] Document Orchestra sync issue in spec work log [task:92a553d3-2de4-430e-b83c-e6ba29182cc4]","date":"2026-04-10"},{"hash":"5bc79c277","message":"[Search] Mark unified search spec as completed [task:92a553d3-2de4-430e-b83c-e6ba29182cc4]","date":"2026-04-10"},{"hash":"9713ddac8","message":"[Search] Add arrow key navigation to nav search autocomplete","date":"2026-04-10"}],"spec_content":"---\ntitle: \"Quest: Search\"\ndescription: \"Universal search across all SciDEX content with autocomplete\"\ntype: quest\nlayer: Cross-cutting\npriority: 95\nstatus: active\nquest_id: adc94873-2cd\nspec_path: docs/planning/specs/quest_search_spec.md\n---\n\n# Quest: Search\n\n**Layer:** Cross-cutting  \n**Priority:** P95  \n**Status:** active  \n**Tasks:** 194 total (8 done, 1 open)\n\n## Vision\n\nUniversal search across all SciDEX content with autocomplete\n\n## Open Tasks\n\n- [ ] [Search] Ensure /search page works end-to-end with all content types (P90)\n\n\n## Success Criteria\n\n- [ ] All open tasks completed and verified\n- [ ] Integration tested end-to-end with dependent quests\n- [ ] UI pages rendering correctly for this quest's features\n- [ ] Documentation updated for new capabilities\n\n## Quality Requirements\n\n> Search accuracy: >90% of returned results are scientifically relevant (sampled across 50 random multi-term queries). Ranking must correlate with hypothesis score, citation count, and artifact quality. Autocomplete suggestions must not include stubs or archived content.\n\n## Work Log\n\n_No entries yet._\n","spec_html":"<div style=\"font-size:0.85rem\"><p style=\"color:#bbb;line-height:1.6;margin:0.4rem 0\"><h2 style=\"color:#4fc3f7;margin:1.5rem 0 0.6rem;font-size:1.2rem;font-weight:700\">Quest: Search</h2></p><p style=\"color:#bbb;line-height:1.6;margin:0.4rem 0\"><strong style=\"color:#e0e0e0\">Layer:</strong> Cross-cutting  \n<strong style=\"color:#e0e0e0\">Priority:</strong> P95  \n<strong style=\"color:#e0e0e0\">Status:</strong> active  \n<strong style=\"color:#e0e0e0\">Tasks:</strong> 194 total (8 done, 1 open)</p><p style=\"color:#bbb;line-height:1.6;margin:0.4rem 0\"><h3 style=\"color:#4fc3f7;margin:1.4rem 0 0.5rem;font-size:1.1rem;font-weight:700;border-bottom:2px solid rgba(79,195,247,0.3);padding-bottom:0.2rem\">Vision</h3></p><p style=\"color:#bbb;line-height:1.6;margin:0.4rem 0\">Universal search across all SciDEX content with autocomplete</p><p style=\"color:#bbb;line-height:1.6;margin:0.4rem 0\"><h3 style=\"color:#4fc3f7;margin:1.4rem 0 0.5rem;font-size:1.1rem;font-weight:700;border-bottom:2px solid rgba(79,195,247,0.3);padding-bottom:0.2rem\">Open Tasks</h3></p><p style=\"color:#bbb;line-height:1.6;margin:0.4rem 0\"><div style=\"margin:0.2rem 0;color:#bbb\">&#9744; [Search] Ensure /search page works end-to-end with all content types (P90)</div></p><p style=\"color:#bbb;line-height:1.6;margin:0.4rem 0\"><h3 style=\"color:#4fc3f7;margin:1.4rem 0 0.5rem;font-size:1.1rem;font-weight:700;border-bottom:2px solid rgba(79,195,247,0.3);padding-bottom:0.2rem\">Success Criteria</h3></p><p style=\"color:#bbb;line-height:1.6;margin:0.4rem 0\"><div style=\"margin:0.2rem 0;color:#bbb\">&#9744; All open tasks completed and verified</div>\n<div style=\"margin:0.2rem 0;color:#bbb\">&#9744; Integration tested end-to-end with dependent quests</div>\n<div style=\"margin:0.2rem 0;color:#bbb\">&#9744; UI pages rendering correctly for this quest&#x27;s features</div>\n<div style=\"margin:0.2rem 0;color:#bbb\">&#9744; Documentation updated for new capabilities</div></p><p style=\"color:#bbb;line-height:1.6;margin:0.4rem 0\"><h3 style=\"color:#4fc3f7;margin:1.4rem 0 0.5rem;font-size:1.1rem;font-weight:700;border-bottom:2px solid rgba(79,195,247,0.3);padding-bottom:0.2rem\">Quality Requirements</h3></p><p style=\"color:#bbb;line-height:1.6;margin:0.4rem 0\">&gt; Search accuracy: &gt;90% of returned results are scientifically relevant (sampled across 50 random multi-term queries). Ranking must correlate with hypothesis score, citation count, and artifact quality. Autocomplete suggestions must not include stubs or archived content.</p><p style=\"color:#bbb;line-height:1.6;margin:0.4rem 0\"><h3 style=\"color:#4fc3f7;margin:1.4rem 0 0.5rem;font-size:1.1rem;font-weight:700;border-bottom:2px solid rgba(79,195,247,0.3);padding-bottom:0.2rem\">Work Log</h3></p><p style=\"color:#bbb;line-height:1.6;margin:0.4rem 0\">_No entries yet._<br></p></div>","spec_file":"quest_search_spec.md"}