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ducoterra	3a0fc3db05	phase: 120_failed_turn_retry ... All verification complete. Final report: **Phase 120 — Failed-turn retry: verification pass (all 3 tasks were done; final verification + 1 regression fix)** **Verified:** `ChatMessage.failed`/`error` (≤500, `extra="forbid"` intact); `finalizeFailedTurn` funnel on the 3 failure paths (catch-else, stream-drop guard, zero-frame fallback) with `failed: true` + capped detail + `markLastRetryable`; `appendFailedNote` restore branch (Save-as-doc/Tune excluded); `showErrorBanner`/`retryLastTurn` byte-pinned untouched; only the three paths persist `failed: true` (grep + unit pin); no test asserts the old broken behavior. **Defect found & fixed (rule 7):** a real navigate-away mid-turn let the browser's teardown fetch rejection (TypeError, not AbortError) leak into the failed funnel, persisting a phantom failed brain record — `test_sources_midstream_bug.py::test_no_orphan_brain_message_when_navigated_before_first_token` failed (2 `.msg` after reload) and violated the phase-20 navigate-away convention. Fixed: turn-scoped `leftThePage` flag (set unconditionally on `pagehide`, reset in `runTurn`) skips the funnel in the catch-else branch; pinned by new unit test `test_navigate_away_is_not_a_failed_turn`. No phase-overview/PLAN/todo/complete files touched; no commits made. **Gates (exact):** - `uv run pytest` → 2577 passed - `uv run pytest --cov=app --cov-report=term-missing` → TOTAL 4271 stmts, 99% (>90%) - `uv run pytest tests/e2e/test_failed_turn_retry.py -v --no-cov` → 4 passed (isolated) - `uv run ruff check . && uv run pyright` → clean (0 errors) - Regression E2E, isolated: `test_sources_midstream_bug.py` 6/6 (was 5/6); `test_llm_retry`/`test_tool_scaffolding_guardrails`/`test_stop_generation`/`test_navbar_refresh` 17/17 **Completion criteria:** (1) network error → banner + in-bubble Retry, re-ask without re-typing ✅ (E2E A); (2) refresh restores failed bubble + working Retry, no "new chat" ✅ (E2E C); (3) stopped/successful turns byte-identical ✅ (negative E2E, stop suite, byte-identity units); (4) pytest/coverage/lint/types ✅; (5) commit + phase move — left to the harness per pass rules. **Notable:** deviation = the regression fix above (a navigation is not a failed turn; phase-20 partial-persist convention restored). Next pending phase: `121_git_source_tokens`.	2026-09-24 18:50:36 -04:00
ducoterra	0ff1f8c4d6	chore(agent): phase roadmap from TODO.md — 4 phases (120–123) ... Protocol B append: failed-turn retry (L3–4), git source tokens (L5), image documents (L6 ingest), chat image questions (L6 chat side). TODO.md items now live in .agents/phases/todo/ and the file is cleared. LLM-Generated: true	2026-09-24 16:27:44 -04:00
ducoterra	a5b63f83ad	phase: 119_name_signal_read_chips ... All verification complete. Final report: **Phase 119 final verification pass — all criteria verified, one stale pin fixed.** - Verified implementation of all 6 tasks: D1 component name-hit rule (`name_hit` flag, titles never matched, retired length tie-break), D2 `BOR_NAME_HIT_BONUS` (0.005 default, 0 = byte-identical kill switch, negative fails startup, selection-layer only, `eval_retrieval` `suggested:` line), D3 suggested-folder lines (after `SUGGEST_INTRO`, before first block), D4 cite-discipline `SUGGEST_INTRO` sentence (PERSONA/LOW/`TOOLS_SECTION` byte-pins intact), D5 `done.sources` = read docs only (frontend no-op on empty confirmed), D6 mock `repeat your folder map` echo + new suite + telemetry. - Battery (replica restored per skill, fingerprint docs=1000/chunks=8866 verified, `eval_retrieval --from-file tests/fixtures/retrieval_battery.txt` re-run): **GATE PASS** — gitea README #4 in suggested top-5, forgejo 5/5 (README #1), gateway README in top-5 (#4), qwen3.8-27b quadlets top-5, Mongolia HIGH/fts=5 unchanged. - New E2E in isolation: `4 passed` ×2 (deterministic). All 27 modified E2E suites in isolation: 26 green; **1 stale pin fixed** — `test_source_chip_quality.py` durable-record order pin pre-dated the D1 re-rank (`aliases` stem sub-component name-hits `ssh_aliases.txt`, deterministically lifting `backups.md` over `kubernetes.md`; probe-verified 0.016277 vs 0.016036, 4/4 stable) — re-pinned with the phase-119 rationale; suite green ×2. - Gates: `uv run pytest --cov=app --cov-report=term-missing` → **2547 passed, app coverage 99%** (>90%); `uv run ruff check .` → All checks passed; `uv run pyright` → 0 errors. - Completion criteria: 1 ✅ (battery, recorded), 2 ✅ (folder lines; block/LOW byte-identical pins green), 3 ✅ (read-only chips, zero-read chips nothing, related row + durable record untouched — unit+E2E agree), 4 ✅ (all green), 5 → commit/phase-move left to the harness per pass rules (nothing committed). - Deviations: battery output + real-model telemetry recorded in `.agents/reports/119_name_signal_read_chips/task06_battery_and_e2e.md` and `TOOL_CALLING_TESTING.md` §11 (task files in `complete/` are immutable to this pass); gateway canonical doc at #4 vs overview's #3 was already documented at task 06 (containment gate met). - Next pending phase: **none** — `todo/` holds only phase 119.	2026-09-16 15:50:48 -04:00
ducoterra	795fb56425	add phase 119	2026-09-16 10:05:52 -04:00
ducoterra	9820c361b0	phase: 118_summary_seed_context ... **Phase 118 final verification pass — complete.** All criteria verified; 4 pre-existing defects found and fixed. - **Verified:** summary-seed wiring (`select_suggested` top-5 no-floor → summary blocks, no full text in HIGH prompt), all-doc markdown summaries + NULL backfill (`summary_backfilled`, no `sources_meta` bump), `read` adds full text with `read_docs`-only dedupe, `done.sources` = suggested+read / durable record = suggested+related+read + `suggested=N` log line (seen live in E2E), byte-locked PERSONA/LOW/TOOLS_SECTION, battery gate PASS recorded in `TOOL_CALLING_TESTING.md` §10 (turbo 2026-09-16: 1/2/4 GREEN, cond-3 reported 9/10 per A7, contract 21/21, caps 0). - **Defects fixed (all pre-existing, none phase-118):** ① `ChatMessage` schema missing the phase-113 `related` key → `extra="forbid"` 422'd every done-time auto-save of grounded turns with a related tier, leaving `message_count=1` (root cause of `test_share_chat` 3F; browser-level instrumentation proved the PUT 422) — added the field + unit/integration pins; ② `test_theme_semantic_completion` pins stale vs phase-117 debox (border/chip removed) — re-targeted to assert border/chip *absence*; ③ `test_header_consistency` `<26`px pin red on 26.125px native date-input line — bound relaxed to `<34` (wrap-detection intent kept); ④ `test_navbar_refresh` bor.chat.v1 key set updated for `related`. - **Test/lint/coverage:** `uv run pytest --cov=app --cov-report=term-missing` → **2506 passed, app/ 99%** (>90%); `uv run ruff check . && uv run pyright` → clean, 0 errors. - **E2E:** new story suite in isolation → **2 passed**; full 103-suite matrix sweep (each isolated) → **all 103 green** after the fixes; `test_share_chat` 4 passed, `test_theme_semantic_completion` 8 passed, `test_header_consistency` 3 passed, `test_navbar_refresh` 7 passed. - **Deviations:** none from LOCKED decisions. Note: orphaned diagnostic uvicorn processes briefly made E2E sessions exercise stale code — killed and re-verified; a sweep-regenerated tracked screenshot was restored. No commits made (harness commits). - **Completion criteria:** all 7 ✅ (commit/phase-move is the harness's step). - **Next pending phase:** none — `todo/` holds only this phase's overview pending the harness move.	2026-09-16 06:57:49 -04:00
ducoterra	21aad84a6d	chore(agent): phase roadmap from TODO.md — phase 118 summary seed context (top-5 summary seeding, all-doc summaries)	2026-09-15 22:43:01 -04:00
ducoterra	c851d1a1c5	phase: 117_tool_call_compact ... All verification complete — every gate green. Final report: **Phase 117 final verification pass — all criteria verified** (tasks 01–04 were already in `complete/`; I re-verified the full gate myself, no code changes needed) - **Verified:** `appendToolLine` wraps lines in `details.tool-calls-disclosure` (open live, `closeToolCalls` at delta/done/stop + restore-closed, count via textContent); `addToolLines` parity (closed); `.tool-call` deboxed / `code` dechipped; new disclosure/summary CSS; only the one pinned CSS assert updated - `uv run pytest` → **2466 passed** - `uv run pytest --cov=app --cov-report=term-missing` → **99%** on `app/` (>90% floor) - E2E in isolation: `test_tool_call_compact.py` **4 passed** (fold/expand/deboxed-flow/restored-folded); `test_agent_document_tools.py` **4 passed**; `test_big_read_progress.py` **4 passed** (live disclosure open + `.tool-elapsed` visible); `test_thinking_display.py` **5 passed**; `test_smoke.py` **3 passed** - `uv run ruff check . && uv run pyright` → clean (pyright 0 errors, 0 warnings) - Completion criteria: pins 1–4 ✅ (E2E above); live "calling tool" state byte-identical ✅ (`test_frontend_tool_states.py` 10 passed incl. `test_calling_tool_label_strings`); scope ✅ — `git diff` limited to the 3 frontend assets + 2 unit tests + E2E story + phase files, **0 changes in `app/`** - Notable: `TODO.md` carries a **pre-existing uncommitted owner edit** (new retrieval-context idea) already in the tree before this pass — left untouched, will ride along in the harness commit; pre-existing committed quirk: the brain-wave commit's styles.css comment mislabels itself "Phase 117" (cosmetic, out of this diff) - No commit made (harness commits + moves the phase); **next pending phase: none** — `todo/` holds only phase 117	2026-09-15 18:26:38 -04:00
ducoterra	2ac3fc89c2	feat(ui): swap the in-turn loader for a brain-wave sweep left of the send button ... Phase 117 (owner request, live-mockup-confirmed): the phase-109 3-dot cue becomes a compact ECG trace (49px, P/QRS/T) with a brand sweep traveling the path (bwdraw, 42/140 dash segment, 0.9s loop), the loader repositioned left of the button so its appearance never shifts it. setUiState stays the sole owner of the loader's hidden attribute; the reduced-motion variant stills the sweep. Unit + lifecycle-E2E pins updated for the new contract.	2026-09-15 11:55:59 -04:00
ducoterra	adf31a4a35	phase: 116_modal_scrollbar_theme ... All verification complete — every gate re-run independently and green. Final report: **Phase 116 final verification pass — all green (work was already in the tree; verified, nothing to fix)** - **Verified** `styles.css`: `--scrollbar-thumb`/`--scrollbar-track` tokens in `:root` (color-mix derivations — follow the saved theme, not in BUILTIN_COLORS; contrast 3.73:1 ≥ 3:1, recomputed independently) + scoped rules `.doc-modal .doc-raw` (overflow-x already owned by the element) - **Verified** E2E test 8 `test_raw_code_block_themed_scrollbar`: overflow, scroll action, computed-style theme assertions, screenshot - **Screenshots visually confirmed**: headed `doc_modal_scrollbar_themed_1280.png` shows muted rounded thumb on dark track, no native light-gray bar; headless suite shot records scrolled state (headless Chromium paints no bar UI — documented in test docstring) **Test / lint / coverage (re-run by me):** - `uv run pytest tests/e2e/test_document_viewer.py -v --no-cov` → **8 passed** (isolation) - `uv run pytest --cov=app --cov-report=term` → **2457 passed, app/ 99%** (>90% ✓) - `uv run pytest tests/e2e/test_dark_tech_theme.py -v --no-cov` → **6 passed** (no token collision) - `uv run ruff check .` → clean; `uv run pyright` → 0 errors, 0 warnings **Completion criteria:** 1. Modal scrolls horizontally, scrollbar themed, screenshot shows no native bar — ✅ 2. No global scrollbar change (all new selectors under `.doc-modal`; grep-confirmed), regressions green — ✅ 3. pytest green, coverage >90%, e2e isolated green, ruff+pyright clean — ✅ 4. `--no-gpg-sign` commit + phase move — harness job (left uncommitted in working tree, per rules) **No defects found; no deviations. Next pending phase:** none — `todo/` contains only phase 116.	2026-09-15 06:11:38 -04:00
ducoterra	990c8adf13	phase: 115_doc_draft_discard ... All green — this was the final verification pass; everything from the four completed tasks was already in the working tree and verified. **Phase 115 — Doc drafts: Discard + DELETE route + title fix — verification report** - Verified all 4 task deliverables present: DELETE route (`app/api/doc_drafts.py`), Discard UI (`doc-edit.html` + `doc-edit.js` + `.discard-draft` CSS), title fix (`defaultDocTitle(wrap)` pairing + `saveAsDoc` call site), and all test pins (integration, frontend unit, E2E). No code changes needed. - **Completion criteria:** 1. ✅ Orphaned draft discardable from edit screen; row gone — `test_delete_removes_row_and_invalidates_token` (204 → GET 404), unknown-token 404, admin-gate 403 on all routes, E2E `test_discard_draft_from_edit_screen` all pass. 2. ✅ Title after retry redo = redone answer's own question — E2E `test_save_title_is_the_redo_question_after_retry` passes. 3. ✅ Push flow byte-identical — `git diff` shows only the new DELETE route + module docstring; all 7 existing push tests green. 4. ✅ `uv run pytest --cov=app` → **2457 passed**, app coverage **99%** (>90%); `uv run pytest tests/e2e/test_save_doc_session.py -v --no-cov` → **4 passed**; `uv run ruff check .` → clean; `uv run pyright` → 0 errors. 5. ⏳ Commit + phase-dir move left to the harness (per executor rules, no `git` run; all changes left in the working tree). - No defects found; no deviations. - Next pending phase: none in `todo/` other than this one (`115_doc_draft_discard` is the last).	2026-09-15 05:35:05 -04:00
ducoterra	3846f26a58	phase: 114_embed_question_length ... All verification passes complete — the phase was already fully implemented in the working tree, and every gate is green. No defects found; no code changes were needed. **Final verification pass — Phase 114 (embed question length):** - Verified truncation: `chat.py:459` embeds `request.message[:settings.embed_question_max_chars]` (default 1200, `BOR_EMBED_QUESTION_MAX_CHARS`, `>0` validator); full question still reaches the LLM prompt/log. - Verified error mapping: `EmbeddingInputTooLargeError(EmbeddingError)` (byte-identical message) caught **before** `EmbeddingError` → no retry, terminal frame `detail="Question too long — trim it and re-ask."` + reachability-fine hint; `ChatErrorEvent.hint` additive. - Verified frontend chain: frame `hint` → `err.hint` → `setUiState(error, …, {hint})` → `showErrorBanner(…, {retryable: true})` — hint replaces default `ERROR_HINT`, phase-111 `#banner-retry` button revealed. 4,000-char clamp untouched (A2). - `uv run pytest tests/unit/test_embed_question_length.py -v --no-cov` → 21 passed - `uv run pytest tests/e2e/test_embed_question_length.py -v --no-cov` (isolation, DB up) → 1 passed (4,000-char question → done, no banner) - Regression: `test_llm_retry.py` 4 passed · `test_oneshot_llm_retry.py` 2 passed · `test_chip_sizing_question_cap.py` 6 passed - `uv run pytest --cov=app --cov-report=term-missing` → 2444 passed, TOTAL **99%** (>90% gate) - `uv run ruff check .` → All checks passed; `uv run pyright` → 0 errors, 0 warnings **Completion criteria:** (1) 4,000-char question embeds prefix + full prompt ✅ · (2) too-large → accurate frame + hint + Retry button ✅ · (3) reachability failure byte-identical (retries + old copy) ✅ · (4) all gates green ✅ · (5) commit/phase-move → left to the harness per instructions (no `git add`/`commit` run). **Deviations:** none. **Next pending phase:** `115_doc_draft_discard`.	2026-09-15 04:16:55 -04:00
ducoterra	97d663d16d	phase: 113_source_chip_quality ... All gates green — no defects found; this pass was verification only. **Phase 113 final verification pass — report** - Verified (no code changes needed): `select_documents_tiered` cited/related tiering + `select_documents` wrapper, `TurnPlan.related_docs`, `ChatDoneEvent.related` (additive, old payloads parse), `appendRelated` UI row (`.related-doc`, never `.source-chip`), done-frame + restore-path wiring, two settings with validators, `.env.example` entries - `uv run pytest --cov=app --cov-report=term-missing` → 2422 passed, app/ coverage **99%** (>90% gate) - `uv run pytest tests/e2e/test_source_chip_quality.py -v --no-cov` (isolated) → 2 passed - Regression E2E `test_retrieval_quality.py` + `test_honest_deflection.py` + `test_chat_rag.py` + `test_sources_midstream_bug.py` → 17 passed - `uv run ruff check . && uv run pyright` → clean (0 errors); `bash .agents/validate.sh` → "validation OK" Completion criteria: 1. Single-doc question → exactly one `.source-chip` (E2E): ✅ passed 2. Weak 2nd doc only in de-emphasized related row, never `.source-chip` (unit + E2E): ✅ passed 3. Deflected turn → zero citation chips, weak hits in related row: ✅ passed 4. Full suite green, coverage >90%, isolated E2E green, lint/types clean: ✅ passed 5. `--no-gpg-sign` commit + phase dir move: left to harness per pass rules (task files already in `complete/`) No deviations. Next pending phase: `114_embed_question_length`.	2026-09-15 03:11:05 -04:00
ducoterra	1374faf136	phase: 112_honesty_gate_weak_hits ... **Phase 112 — final verification pass (all 4 tasks already complete in `complete/`):** - Verified gate fix: `app/api/chat.py::plan_turn` — HIGH iff `best_cosine >= relevance_threshold` OR (`fts_hits > 0` AND `best_cosine >= lexical_support_floor`); `lexical_support_floor` (default 0.35, `BOR_LEXICAL_SUPPORT_FLOOR`, bounds-validated) in `app/config.py` + `.env.example`; A8 revision note (2026-09-14) in `.agents/PLAN.md`. - Verified prompt contract: `app/rag/prompts.py` diff is docstring-only (dated owner-decision-iii entry); `tests/unit/test_prompt_lock.py` byte-pins PERSONA/TOOLS_SECTION/DEFLECT body (sha256+length). - Verified README: L11 + L575 deflection copy refreshed; `grep "haven't done anything" README.md` → no hits; disclosed-answer behavior documented. - Tests: `uv run pytest --cov=app --cov-report=term-missing` → **2378 passed, 99% coverage (>90%)**; includes Mongolia-quadrant unit pins (fts>0 + cosine<floor → LOW). - E2E in isolation: `uv run pytest tests/e2e/test_honest_deflection.py -v --no-cov` → **4 passed** (out-of-KB question: `deflected=true`, `sources==[]`, 2–3 suggestions); regression `test_chat_rag.py` + `test_retrieval_quality.py` → **7 passed**. - Lint/types: `uv run ruff check .` → clean; `uv run pyright` → 0 errors. **Completion criteria:** weak-FTS→LOW unit-pinned ✅ · no false citations + 2–3 alternatives E2E ✅ · prompts byte-identical (test-pinned) + README matches ✅ · suite/coverage/e2e/lint all green ✅ · commit + phase move → left to harness (no `git commit` run, per rules; changes in working tree). **Deviations:** none. Next pending phase: `113_source_chip_quality`.	2026-09-15 00:37:38 -04:00
ducoterra	2683128876	phase: 111_chat_banner_retry ... ## Phase 111 Completion Report **Implemented/Verified:** - `#kb-banner` contains a `<button type="button" class="banner-retry" id="banner-retry">` (hidden by default, Retry label + SVG) - `showErrorBanner(detail, opts)` reveals the button only when `opts.retryable` is true AND `lastBrainWrap` exists - Turn-error path passes `{ retryable: true }`; all non-turn callers (share, save-doc, stale) remain text-only - `clearErrorBanner()` re-hides the button - `ERROR_HINT` changed from "Try again — …" to "If this persists, check the LLM is reachable." - `.banner-retry` CSS styled as a pill (matching `.stale-regenerate` family) - 12 source-assertion unit tests in `tests/unit/test_frontend_banner_retry.py` **Test / Lint / Coverage:** - `uv run pytest tests/unit/test_frontend_banner_retry.py -v --no-cov` → 12 passed - `uv run pytest --cov=app --cov-report=term-missing` → 2362 passed, 99% coverage - `uv run ruff check .` → All checks passed - `uv run pyright` → 0 errors - `tests/e2e/test_llm_retry.py` → 4 passed (in isolation) - `tests/e2e/test_smoke.py` → 3 passed (in isolation) **Completion Criteria:** - ✅ Retry button visible after failed chat turn, re-runs last question - ✅ Non-turn callers show text-only banner (no button) - ✅ pytest green, coverage >90%, ruff + pyright clean - ✅ Phase dir to be moved by pipeline gate **Next pending phase:** `112_honesty_gate_weak_hits`	2026-09-14 23:07:56 -04:00
ducoterra	f37c517590	chore(agent): phase roadmap from TODO.md — 6 phases (111–116): banner retry, honesty gate, chip quality, embed length, draft discard, modal scrollbar	2026-09-14 22:07:32 -04:00
ducoterra	2b75f3cc85	docs(todo): log live testing findings L1-L7 (brain.reeseapps.com session) ... Interactive browser test session (15 tests) against the deployed instance. Findings: L1 banner 'Try again' is plain text, L2 honesty gate eagerness + stochastic deflection compliance, L3 unstyled modal scrollbar, L5 recurring weak-hit 2nd source chip, L6 4000-char question clamp exceeds the embed input cap (500 surfaced as 'unreachable'), L7 save-as-doc drafts have no discard path. Each entry carries observed evidence, suggested fixes and acceptance.	2026-09-14 21:31:08 -04:00
ducoterra	9ce13b6290	add vulns.md	2026-09-14 16:01:58 -04:00
ducoterra	3a4035fc96	phase: 110_fix_sse_db_pool_exhaustion ... --- **Phase 110 — Fix SSE DB Connection Pool Exhaustion (SEC-14-04): COMPLETE** **What was implemented/verified:** - All three tasks (pool config, short-lived sessions, concurrency cap) were already implemented in code - Fixed `tests/integration/test_chat_db_sessions.py` — added FakeChatLLM mock, fixed LLM signature (`tools=` not `_tools=`), used `fastapi_app.dependency_overrides` instead of `client.app.dependency_overrides` - Fixed `tests/e2e/test_chat_db_pool.py` — added FakeChatLLM mock, fixed admin password to match `tests/conftest.py`, removed unused imports - Fixed lint errors (unused imports, import order) in both test files **Test / lint / coverage results:** - `uv run pytest` → 2350 passed, 1 warning, 56.4s - `uv run pytest --cov=app --cov-report=term-missing` → 99% coverage (4065 lines, 16 uncovered) - `uv run pytest tests/e2e/test_chat_db_pool.py -v --no-cov` → 3 passed - `uv run pytest tests/integration/test_chat_db_sessions.py -v --no-cov` → 4 passed - `uv run pytest tests/integration/test_chat_concurrency.py -v --no-cov` → 11 passed - `uv run pytest tests/unit/test_db_pool_config.py -v --no-cov` → 14 passed - `uv run pytest tests/unit/test_agent_short_lived_sessions.py -v --no-cov` → 7 passed - `uv run ruff check .` → all checks passed - `uv run pyright` → 0 errors, 0 warnings **Completion criteria:** - [✓] `app/db.py::create_engine` receives explicit `pool_size=5`, `max_overflow=10`, `pool_recycle=3600` from settings - [✓] `run_agent` accepts `db_factory: Callable[[], Session]` and creates short-lived sessions per tool call - [✓] Each tool round uses a separate DB session closed after the tool result - [✓] Concurrency cap (`BOR_CHAT_MAX_CONCURRENT`, default 10) limits concurrent turns; excess get 503 - [✓] All test gates green, coverage 99%, lint/types clean **Notable decisions:** Tests needed LLM mocking (the original test files lacked `FakeChatLLM` mocks, causing hangs on real LLM calls). **Next pending phase:** None — this is the last phase in `todo/`.	2026-09-14 15:55:13 -04:00
ducoterra	35d65d2f25	feat(rag): summarize single-document folders (MIN_DOCS_PER_FOLDER 2 → 1) ... Relax the phase-94 folder-summary scope rule from ≥ 2 documents to ≥ 1: a folder (or source root) is a candidate while ANY document lives under it, so single-file folders and single-file source roots get their own lite-written description. A row is now pruned only when its folder loses its last document (vanishes from the catalogue). The constant is the single source of truth, so the flip propagates to the generator's candidate set, the prune pass, the missing_folder_summaries gap probe (the next sync self-heals the new gaps), and the KB-tree summary_pending markers (1-doc folders / sources now read "Summary pending" until their row lands). Docstrings/comments across app/, scripts/import_docs.py, and the E2E fixtures updated to the ≥ 1 wording. Unit + integration tests updated to the new semantics (the pruned-below-minimum scenario is now a folder losing its LAST doc; single-doc folders are pinned as candidates/pending). Full suite: 2314 passed, app coverage 99%; ruff + pyright clean; folder-summary E2E stories pass in isolation (ls_tree_drilldown, sync_summary_visibility, kb_tree, kb_tree_nav, document_dates, oneshot_llm_retry).	2026-09-14 08:57:57 -04:00
ducoterra	3a81793565	phase: 109_turn_progress_loader ... All gates green. Final report: **Phase 109 — final verification pass (all 3 tasks were already complete; no re-implementation needed)** - Verified D15 (thinking-handler re-open `block.open = true` after `ensureThinkingBlock`; delta keeps closing; "never reopens" narrative removed; restore path still collapses) and D16 (single static `#turn-loader` in composer row, `aria-hidden`, sole `turnLoader.hidden = !inFlight` write in `setUiState`; CSS reuses `typing` keyframes + reduced-motion override after the main rule + provenance; global `[hidden]` guard intact; mock `TURN_PROGRESS_TRIGGER` repro marker; `app/` untouched — pure UI phase). - Unit pins: `tests/unit/test_frontend_turn_loader.py` (9 tests) — green via full run. - `uv run pytest tests/e2e/test_turn_progress_loader.py -v --no-cov` → **3 passed** (isolation, DB up): loader visible send→tool-gap→final-thinking, hidden after done; re-opened scratchpad carries `marker-thought-42`/`marker-final-thought-42`; `#send-status` carries state text, back to empty idle; reduced-motion context stills dots (computed `animation-name: none`) with loader still visible. - Regressions in isolation: `test_thinking_display` 5 passed, `test_stop_generation` 3 passed, `test_big_read_progress` 4 passed, `test_loading_feedback` 5 passed. - `uv run pytest` → **2314 passed**; `uv run pytest --cov=app --cov-report=term-missing` → **TOTAL 99%** (>90%); `uv run ruff check .` clean; `uv run pyright` → 0 errors, 0 warnings. - All terminal paths (done→idle L2554, stream error→error L2543, timeout→error L2247) funnel through `setUiState` — never-stale by construction. - No defects found; no code changes made in this pass. Commit + phase-dir move left to the harness per pipeline rules (working tree carries all changes). - Next pending phase: `108_history_wire_check` (still in `todo/`; out of scope here).	2026-09-14 01:27:16 -04:00
ducoterra	fbbd98d734	phase: 108_history_wire_check ... Final verification pass complete — everything independently re-verified green. Report: **Phase 108 — History wire check (final verification pass; verdict: NO BUG, tests-only per D13)** - Verified all 3 tasks complete in `.agents/phases/complete/108_history_wire_check/`; re-ran every pin and gate myself - Layer 1 (unit): 2 owner-shape pins in `tests/unit/test_history.py` (2-turn keep-whole + A4 thinking mapping) — pass - Layer 2 (integration): `test_endpoint_two_turn_history_reaches_the_llm` — captured LLM request = `[system, user Q1, assistant R1, user Q2]`, `history_msgs=2` — pass - Layer 3 (E2E): `tests/e2e/test_history_wire_check.py` — owner's verbatim 3-message scenario, echo byte-exact (T2: `2 prior messages`+R1 tail; T3: `4 prior messages`+R2 tail) — pass - `VERDICT.md` present in phase dir: layer outcomes + "no bug — model behavior/user error" + pin names **Gates (exact results)** - `uv run pytest --cov=app --cov-report=term-missing` → 2305 passed, TOTAL **99%** (>90%) - `uv run pytest tests/e2e/test_history_wire_check.py -v --no-cov` → 2 passed (isolation, DB up) - `uv run pytest tests/e2e/test_llm_history.py -v --no-cov` (phase-74 regression) → 3 passed - `uv run ruff check .` → clean; `uv run pyright` → 0 errors **Completion criteria:** all six met — no defects found; diff scoped to `tests/**`, `VERDICT.md`, `.agents/phases/**`, `.agents/reports/**` (no `app/`/`frontend/` changes, consistent with no-bug verdict). Per executor rules, no git commit made — left for the harness. **Next pending phase:** `109_turn_progress_loader`	2026-09-13 23:57:54 -04:00
ducoterra	6bcee831ec	phase: 107_git_full_history_dates ... All green — verification complete. Final report: **Phase 107 — final verification pass (all tasks already in `complete/`)** - **Verified:** `clone_or_pull` full-history fix (no `--depth` clone; `--is-shallow-repository` probe → one-time `git fetch --unshallow` self-heal → `git pull --ff-only`; D12 fail-loud) in `scripts/git_sync.py`; E2E suite `tests/e2e/test_git_source_dates.py` present; all five stale shallow/tip-date narratives corrected (no residual claims repo-wide; `docs_push.py` `--depth` fetches untouched as designed). - **Unit+integration:** `uv run pytest tests/unit/test_git_sync.py tests/integration/test_git_file_dates.py tests/integration/test_import_docs_git.py tests/integration/test_sync_api.py -v --no-cov` → **66 passed** (D10 tip-date test replaced by `test_url_clone_yields_true_per_file_dates` + `test_existing_shallow_checkout_self_heals`; unit pins: clone argv w/o `--depth`, probe→unshallow→pull order, unshallow-failure → `GitSyncError`). - **New E2E in isolation:** `uv run pytest tests/e2e/test_git_source_dates.py -v --no-cov` → **4 passed** (old file 2020-06-15 ≠ tip file 2024-06-15 in `GET /api/docs`, Sources `Created`/`Updated` columns, viewer `Created` badge ISO title; folder `updated_at` subtree maxes). - **Phase-106 regressions in isolation:** `test_document_dates.py` → 6 passed; `test_sync_button.py` → 3 passed; `test_git_sources_admin.py` → 6 passed. - **Full gates:** `uv run pytest` → **2302 passed**; `uv run pytest --cov=app --cov-report=term-missing` → **TOTAL 99%** (>90%); `uv run ruff check . && uv run pyright` → **clean, 0 errors**. - **Completion criteria:** 1 ✅ non-shallow URL clone + true per-file dates · 2 ✅ self-heal / plain-pull / fail-loud · 3 ✅ both suites green, bug-pin replaced · 4 ✅ E2E green in isolation · 5 ✅ all regressions + full suite + coverage + lint · 6 ✅ narratives corrected · 7 — no commit made (harness override: changes left in working tree; task files already in `complete/`). - **No defects found; no deviations.** Next pending phase: **108_history_wire_check**.	2026-09-13 23:21:39 -04:00
ducoterra	addbd4ca08	add phase 107	2026-09-13 22:28:04 -04:00
ducoterra	e2d08a95a9	chore(agent): phase roadmap from TODO.md, 2 phases (108 history-wire check, 109 turn progress loader)	2026-09-13 22:27:05 -04:00
ducoterra	ee3efb28c9	phase: 106_document_dates ... Everything is verified green. Final report: **Phase 106 — Document dates (final verification pass; all 10 tasks already complete)** - Verified all phase artifacts: alembic `0020` (dev DB at `0020`), `doc_dates.py`, git `file_commit_dates`, importer `doc_dates_by_root`/`dates_updated`, both entry-point wirings, date APIs + tree `created_at`/`updated_at`, LLM surfaces (prompt block, `read` line 2, appended `ls` field), `apply_recency_boost` in `retrieve()`, UI columns/badge, admin editor, mock-LLM regex — all present and correct; no defects found, no fixes needed. - `uv run pytest --cov=app --cov-report=term-missing` → **2299 passed, TOTAL 99%** (>90% ✓) - `uv run pytest tests/e2e/test_document_dates.py -v --no-cov` → **6/6 passed** in isolation (DB up) - 12 regression E2E suites (retrieval_quality, whole_document_context, agent_document_tools, ls_tree_drilldown, read_truncation_cap, kb_tree, kb_tree_nav, document_viewer, edit_summaries, import_documents, sync_button, hidden_folders_toggle, smoke) → **all green in isolation** - `uv run ruff check .` → clean; `uv run pyright` → **0 errors, 0 warnings** **Completion criteria:** 1) non-null `created_at` + 0020 upgrade/downgrade on dev DB ✓ (real-Alembic integration tests) 2) sync refresh/older/manual-persists/content-reset/no sources_meta bump ✓ 3) zip/tar mtime + future→today ✓ 4) LLM date surfaces + cross-check ✓ 5) UI Created/Updated/badge positions ✓ 6) admin editor set+revert round-trip ✓ 7) old-correct-beats-new-similar (defaults & boost-off) + near-tie + `BOR_RECENCY_BOOST=0` byte-identical ✓ 8) full gate ✓ 9) commit/phase-move — left to harness per instructions. - **Notable:** recency default tuned 0.001 → **0.0007** (task 07 step 5 explicitly permits; measured margins recorded in `test_recency_boost.py` docstring). - **Next pending phase:** none — `todo/` holds only this phase.	2026-09-13 19:28:05 -04:00
ducoterra	cec819743d	add phase 106 - document dates	2026-09-13 12:18:01 -04:00
ducoterra	8476dc1e07	phase: 99_kb_tree_table_and_back_nav ... All verification is complete and green. Final report: **Phase 99 — final verification pass (all 3 tasks already in `complete/`)** - Verified the one-line Description clamp: `.kb-desc-cell` flex wrapper + `.kb-desc-text` ellipsis triad + `nowrap` column + in-cell Edit button + hover `title` + untouched level block (source diffs match D1; unit pins present) - Verified the back-button breadcrumb nav: `applyTarget(target, push)` state-only `pushState`, no-duplicate gate, popstate adopt/reset, `bor:view-refresh` alignment before `loadTree()`, anonymous gate listener-free, router.js untouched (D2) - `uv run pytest --cov=app`: **2180 passed**, coverage **99%** (>90% gate) - `uv run ruff check .`: clean; `uv run pyright`: **0 errors, 0 warnings** - `uv run pytest tests/e2e/test_kb_tree_nav.py -v --no-cov` (isolated, DB up): **4/4 passed** (back-walk, jump-then-back, fresh-nav/active-reclick, measured clamp incl. row-height parity ±4px, computed styles, full text in DOM/title/level block) - Regression suites isolated: `test_kb_tree.py` 8✓, `test_ls_tree_drilldown.py` 3✓, `test_navbar_refresh.py` 7✓, plus `test_sync_summary_visibility.py` 3✓ (marker pin updated to `kb-desc-text kb-summary-pending` — the sanctioned class-pair change) and `test_edit_summaries.py` 4✓ - Criteria 1–4: **met** (each as above). Criterion 5 (atomic commit): left to the harness per executor rules — no `git add`/`commit` run; all changes left in the working tree - No defects found in prior phases; no deviations. Stray `__pycache__/test_zz_smoke_tree_ui.*.pyc` is a leftover (no `.py` on disk) — inert, not touched - Next pending phase: **none** — `todo/` will be empty once the harness moves this phase	2026-09-13 01:57:40 -04:00
ducoterra	f665a83b1a	phase: 98_sync_summary_visibility ... All verification complete. Final report: **Phase 98 — Sync summary visibility: final verification pass** (all 5 tasks already complete; implementation verified against the design, no defects found, no code changes needed) - **Implementation checked:** `SyncStatus` phase machine (4 new keys, terminal-keep counts), `on_progress` hook in `generate_folder_summaries`, `summary_pending` on `KbTreeSource`/`KbTreeFolder` + D3 rule in `build_kb_tree`, phase-aware sync labels + pending UI in `sources.js`, `.kb-summary-pending` CSS — all match decisions D1–D5. - **Unit + integration:** `uv run pytest` → 2184 tests, 0 failed/errors (exit 0) - **Coverage:** `uv run pytest --cov=app --cov-report=term-missing` → **99%** on `app/` (criterion >90% ✓; `app/api/sync.py` and `app/rag/folder_summaries.py` at 100%) - **Lint/types:** `uv run ruff check .` → All checks passed; `uv run pyright` → 0 errors, 0 warnings - **Phase E2E (isolation):** `uv run pytest tests/e2e/test_sync_summary_visibility.py -v --no-cov` → **3 passed** (phase machine, live label, pending markers + gap-fill self-heal) - **Regression suites (each isolated, `--no-cov`):** test_kb_tree ✓, test_ls_tree_drilldown 3 ✓, test_sync_button 3 ✓, test_sync_upload_progress 4 ✓, test_oneshot_llm_retry 2 ✓, test_local_directory_sources 3 ✓ - **Completion criteria:** all 7 verified green — status phase fields + terminal semantics; `Writing KB overview…`/`Summarizing folders… (n/m)` labels (title + aria-live); pending set == `missing_folder_summaries` (integration cross-check pinned at `test_docs_api.py:428`); CLI/`ls` byte-identity (no changes to those paths, pins green); suite/coverage/lint gates; dedicated + regression E2E. Commit left to the harness per protocol (no `git add`/`commit` run). - **Decisions/deviations:** none — no fixes were required this pass. - **Next pending phase:** `99_kb_tree_table_and_back_nav`.	2026-09-13 00:23:05 -04:00
ducoterra	909c96c7bc	minor fix to prevent null bytes from breaking sync	2026-09-12 22:12:09 -04:00
ducoterra	d731169b8b	phase: 105_hidden_folders_toggle ... All completion criteria verified. Everything is green. **Phase 105 final verification pass — all criteria verified** - Verified the full implementation in the working tree: `git_sources.include_hidden` column + alembic `0019` (dev DB at head, column present), `iter_importable_files`/`import_sources` flag support with `str(root)`-keyed map used by both walk and progress pre-walk, `GitSourcePatchIn` rename with optional fields, sync/CLI pipeline wiring (OR-collision), and the per-row "Hidden" checkbox + tag + error line on the Sources page - Unit + integration: `uv run pytest` → exit 0 (2148 tests collected, all pass; this sandbox occasionally swallows pytest's final status line — exit codes verified) - Coverage: `uv run pytest --cov=app --cov-report=term-missing` → **TOTAL 99%** (3879 stmts, 15 miss) — >90% gate ✓ - Dedicated E2E: `uv run pytest tests/e2e/test_hidden_folders_toggle.py -v --no-cov` → **6 passed in 23.20s** (DB up, in isolation) - Regression E2E in isolation: `test_source_ignore_paths` 6 passed, `test_git_sources_admin` 6 passed, `test_local_directory_sources` 3 passed, `test_sync_button` 3 passed, `test_smoke` 3 passed - Lint/types: `uv run ruff check .` + `uv run pyright` → clean (0 errors/warnings) **Completion criteria:** (1) checkbox persists via PATCH 200 → "hidden on" tag + GET round-trips `include_hidden: true`; failure path reverts box + `role="alert"` canned message ✓; (2) flag OFF byte-identical (only `visible.md` indexed), ON indexes `.hidden/note.md` into the KB catalog, `EXCLUDED_DIRS` excluded both states ✓; (3) A2: flag OFF → `detail.pruned==1`, doc gone from catalog ✓; (4) PATCH bool-only/list-only/both/neither no-op, phase-89 fixed 422s unchanged, 404, anonymous 403 (incl. bool-only body) ✓; (5) env-fallback rows render no checkbox, WCAG-clean (aria-label, keyboard focus, visible label, text tag) ✓; (6) full gate green ✓; (7) commit left to the harness per instructions (no `git add`/`commit` run; phase files untouched). **Deviations:** none — no defects found; no code changes were needed on this pass. **Next pending phase:** `.agents/phases/todo/98_sync_summary_visibility`.	2026-09-12 21:26:30 -04:00
ducoterra	ecc921098a	phase: 104_chip_sizing_question_cap ... All completion criteria verified. Final report: **Phase 104 — final verification pass: all green** - Verified (no code changes needed): single-line ellipsized `.suggestion-chip` CSS + deleted `.maybe-try` override, `renderChips` full-text `title` + `aria-label`-when-clipped, `maxlength="4000"` + `#char-count` counter + `handleSend` over-cap guard, unit pins file, schemas boundary pins, dedicated E2E suite. - E2E (isolation): `uv run pytest tests/e2e/test_chip_sizing_question_cap.py -v --no-cov` → **6 passed**; regressions: `test_suggestion_chips.py` 8 passed, `test_pinned_composer.py` 4 passed, `test_responsive_polish.py` 7 passed, `test_chat_history.py` 5 passed. - `uv run pytest` → **2102 passed**; `--cov=app` → **99%** (>90%); `uv run ruff check . && uv run pyright` → clean, 0 errors. - Criteria: chip E2E (single-line, clipped, title+aria-label full text) ✅; paste caps at exactly 4,000, send streams, counter hides ✅; programmatic 5,000-char fill → banner, no turn, text kept ✅; 4,000/4,001 boundary pinned + HTML maxlength == JS constant cross-file pin ✅. - Diff scope: `frontend/`, new unit file, `tests/unit/test_schemas.py`, new E2E file, phase files — **no `app/` diff, no migration, no `shared.js` diff**. - Deviations: 4 regression test files touched — 2 genuine DOM-pin conflicts from the new `#char-count` child (explicitly anticipated by the overview) + 3 documented **pre-existing E2E flake fixes** (smooth-scroll race, tab-walk heuristic, 10 ms timeout), each verified pre-existing on the pre-phase-104 tree. - No commit made (harness commits per the execution protocol override). - Next pending phase: `98_sync_summary_visibility`.	2026-09-12 19:45:00 -04:00
ducoterra	1f1c01c9f7	phase: 103_suggestions_session_openers ... Phase 103 final verification pass — all green. **Verified (all 3 tasks already in `complete/`; no code changes needed):** - `opening_questions` in `app/api/suggestions.py` — forward walk, one opener per chat (first non-blank user msg, A3), reads raw `messages` not `title` (A4), phase-80 order/dedup/cap/seed contracts; `last_questions` name gone from `app/`+`tests/` - Docs updated: `app/config.py` seed docstring, `.env.example` `BOR_SUGGESTIONS`, `README.md` — "session openers" wording - Diff scope correct: only the 6 expected files + phase-file moves; `app/rag/suggestions.py` and `frontend/` untouched **Test / lint / coverage results:** - `uv run pytest tests/integration/test_suggestions_api.py -v` → 12 passed - `uv run pytest tests/e2e/test_suggestion_chips.py -v --no-cov` → 8 passed in isolation (opener-only core pin included) - `test_responsive_polish.py` → 7 passed; `test_chat_persistence.py` → 4 passed (both isolated, no edits) - `uv run pytest --cov=app --cov-report=term-missing` → 2086 passed, TOTAL 99% (>90%); `app/api/suggestions.py` 100% - `uv run ruff check .` → clean; `uv run pyright` → 0 errors, 0 warnings **Completion criteria:** all 7 ✅ (follow-ups-never-surface pin; cap-across-chats pin; seed/dedup/case/partial/A3/401 pins; E2E suites isolated; deflection chips unchanged; full suite + lint; commit + dir move left to harness per executor rules). **Deviations:** none — no defects found; nothing changed in this pass. **Next pending phase:** `98_sync_summary_visibility` (numeric order in `todo/`).	2026-09-12 16:37:50 -04:00
ducoterra	3b2dea5685	phase: 102_extensionless_filenames ... All verification complete — every gate green, no defects found in previously completed work. **Phase 102 final verification pass — report** Verified (all three task files present in `complete/`; working-tree implementation matches D1–D5 design): - `match_extension` choke point in `app/rag/importer.py` (walk + `formats` counter), `doc_format` name-token badge in `app/api/docs.py`, config/`.env.example` docs, fixture `tests/fixtures/extensionless_kb/`, integration + E2E suites — all present and correct - Completion criteria: end-to-end sync (✓ integration + E2E), case matrix incl. `mydockerfile`/`Dockerfile.dev`/`.dockerfile` exclusions (✓ unit), `formats=dockerfile:1` not `unknown` (✓ log-line assertion), badge `dockerfile`/`containerfile` + `text` fallback + suffixed unchanged (✓ unit/integration/E2E), prune-on-token-removal (✓ `pruned==2`), suffixed-path rule byte-identical (✓ single-line swap, existing cases untouched) Test / lint results (exact commands): - `uv run pytest --cov=app --cov-report=term-missing` → 2084 passed, **99%** coverage (>90% gate) - `uv run pytest tests/e2e/test_extensionless_import.py -v --no-cov` → 2 passed, isolated, DB up - Regressions isolated: `test_import_documents` 3✓, `test_import_extensions_env` 2✓, `test_quadlet_jinja_import` 4✓, `test_document_viewer` 7✓, `test_kb_tree` 8✓ - `uv run ruff check .` → clean; `uv run pyright` → 0 errors, 0 warnings Notable: commit intentionally not made (harness commits the phase); 102's task files already sit in `complete/`, overview stays in `todo/` for the harness. Next pending phases: 98, 99, 103, 104, 105 (numeric next after 102: `103_suggestions_session_openers`).	2026-09-12 15:56:43 -04:00
ducoterra	4dbac1660a	phase: 101_tokens_page_overhaul ... All gates verified green — no defects found, nothing to fix. Final report: ## Phase 101 — final verification pass (all tasks already complete; verified, not re-implemented) **Verified against the working tree** (task files 01–04 present in `complete/`): - Active/revoked table split (Status column gone, section hidden while 0 revoked, per-table search with query state surviving re-renders) in `frontend/index.html` + `tokens.js` - `generateToken()` refuses blank/whitespace names (`Give the token a name first.`, no request); `|| "token"` fallback deleted - Atomic rotation: `regenerate_token` service + `POST /api/tokens/{id}/regenerate` (201 new-plaintext-once / 404 / 409 / router-wide 403) + `TokenListItem.revoked_at` (D5) - Regenerate two-step confirm UI + CSS (`.token-regenerate`, neutral hover, no new hue); A4 pins intact **Test / lint / coverage results:** - `uv run pytest` → **2065 passed** - `uv run pytest --cov=app --cov-report=term-missing` → **TOTAL 99%** (>90% ✓) - `uv run ruff check . && uv run pyright` → clean (0 errors) - `uv run pytest tests/e2e/test_tokens_page.py -v --no-cov` → **4 passed** (isolation, DB up) - Regression, each in isolation: `test_api_tokens.py` **9 passed**, `test_admin_auth.py` **6 passed**, `test_shared_header.py` **6 passed**, `test_theme_semantic_completion.py` **8 passed** (its revoked-pill pin was correctly re-scoped to the revoked table in this phase) **Completion criteria:** 1 ✓ split+search (E2E 1–2) · 2 ✓ required name (E2E 3 + source pin) · 3 ✓ rotation end-to-end, old token refused at gate (E2E 4 + API 404/409 pinned) · 4 ✓ A4 holds (list carries no plaintext/hashes) · 5 ✓ suite/coverage/lint green · 6 ✓ E2E + regressions green in isolation · 7 commit left to the harness per executor rules (all changes uncommitted in the working tree) **Deviations:** none. Next pending phase: `98_sync_summary_visibility`.	2026-09-12 15:16:02 -04:00
ducoterra	58e9d94cff	phase: 100_page_width_consistency ... **Phase 100 — final verification pass: all green.** - Verified the shipped CSS contract directly: `--chat-column: 72rem` in `:root`; 0 literal `max-width: 46rem`; no `@media (min-width: 1500px)` block; exactly 4 token-capped reading columns; tuning/theme/doc-edit shells cap-free, structurally `.sources-shell`; `mock_llm.py` diff is comment-only. - Defect found & fixed (phase-93 suite): `test_theme_semantic_completion.py::test_reset_removes_tag_byte_identical` raced theme.js's post-PUT refetch — it asserted the `#bor-theme` tag was gone right after the result line, but tag removal lands in the reconcile after the re-fetch (failed ~1 in 5 runs after `test_chat_rag`, reproduced). Fixed with an auto-waiting `expect(...).to_have_count(0)` (settled-state wait, the file's existing house pattern). 6/6 clean on the repro loop after. - Tests/lint/coverage: `uv run pytest --cov=app --cov-report=term-missing` → 2052 passed, **99%** on `app/`; `uv run ruff check .` + `uv run pyright` → 0 errors. - E2E in isolation (all passed): `test_wide_desktop_column.py` 3 (the phase suite — chat==tuning==theme==RAG ±4px at 1280 & 1920, ≈1152px; shared ≈1152px; standalone doc ≈1112px; modal unchanged ≈1100px; 360px overflow-free), `test_ui_customization` 4, `test_admin_theme_tab` 5, `test_document_viewer` 7, `test_save_share_ux` 5, `test_sticky_navbar` 3, `test_markdown_tables` 6, `test_responsive_polish` 7, `test_chat_rag` 3, `test_theme_semantic_completion` 8. - Completion criteria: ① measured 72rem everywhere (≥~1200px, ±4px) + full-width below + 360px clean — **PASS** (E2E); ② zero 46rem rules / no 1500px block / four token selectors — **PASS** (grep + unit pins); ③ B4 byte-identical no-op + mobile squeeze — **PASS** (theme + responsive suites green); ④ full suite / coverage / lint — **PASS**; ⑤ atomic commit — left to the harness per executor protocol (all changes in the working tree, uncommitted). - Deviations: none from phase decisions; only change in this pass is the race fix above (test-only, behavior unchanged). - Next pending phase: `98_sync_summary_visibility` (numeric order in `todo/`; also pending: 99, 101–105).	2026-09-12 13:37:19 -04:00
ducoterra	a2ca2f905f	chore(agent): phase 105 (hidden-folders toggle) from TODO.md, clear the list	2026-09-12 11:55:03 -04:00
ducoterra	ffa6bda3e5	add phases for fixing suggestion chips	2026-09-12 10:52:51 -04:00
ducoterra	17dd3bfac1	docs(plan): remove hardcoded phase/migration references to prevent staleness ... Refactor §12 roadmap to point to ls commands and 00_phase.md files instead of listing specific phase numbers and descriptions. Remove ~20 phase-number references from anchors, revision notes, tool surface, feedback, and sync sections — keep only the one stable reference (phase 03 convention). Replace migration ranges with 'ls alembic/versions/'. Replace hardcoded retry values with 'configurable (defaults: ...)'. Status header now points to §12 instead of listing counts.	2026-09-12 10:22:45 -04:00
ducoterra	800bea769a	docs(phases): author todo queue phases 98-102 ... 98 sync summary visibility (status phases + pending markers), 99 catalog one-line clamp + breadcrumb back-nav, 100 72rem page-width consistency, 101 tokens page overhaul, 102 extensionless filename import.	2026-09-12 10:15:22 -04:00
ducoterra	ad7585d474	phase: 97_kb_tree_catalog ... All completion criteria verified — everything is green, no defects found. Final report: ## Phase 97 final verification pass — ALL GREEN **Verified (no code changes needed):** - `GET /api/docs/tree` (admin), `build_kb_tree` pure builder, `PATCH /api/folders/summary`, migration 0018 (`manually_edited`, head confirmed), generator skip/keep + `kept_manual` stat, RAG tree UI + edit affordance in `sources.js`/`index.html`/`styles.css` - `tests/e2e/test_kb_tree.py`: 8 passed — top level, drill source/folder, edit round-trip, clear, manual-desc-survives-sync, reload fallback, anonymous gate - Integration: tree shape/order/403/empty/indexed-only + PATCH update/create/root/clear/404/403/no-LLM + stat-walk equivalence (in `test_docs_api.py`); 3-field `folder_summaries=` import token preserved **Gates (exact commands):** - `uv run pytest --cov=app --cov-report=term-missing` → **2053 passed**, TOTAL coverage **99%** (>90% ✓) - `uv run ruff check . && uv run pyright` → **All checks passed / 0 errors** - `uv run pytest tests/e2e/test_kb_tree.py -v --no-cov` → **8 passed** in isolation - 30 story/RAG-view E2E suites run **one per process**: all passed, incl. `test_ls_tree_drilldown` (agent `ls` byte-identical ✓), `test_import_documents`, `test_edit_summaries`, `test_admin_auth`, `test_kb_overview` **Completion criteria:** tree view ✓ · edit round-trip + clear ✓ · manual persists/clear resets ✓ · `ls` unchanged ✓ · pytest/coverage/lint ✓ · E2E isolation ✓ · commit — left to harness per protocol (working tree untouched, `git add/commit` not run) **Deviations:** none. **Next pending phase:** none — `todo/` contains only 97 (96 already committed).	2026-09-11 22:48:02 -04:00
ducoterra	a49be80b8e	phase: 96_oneshot_resilience ... All checks complete. Final report: **Phase 96 (one-shot resilience) — final verification pass, all green** (all 4 task files already in `complete/`; verified the working-tree implementation against the design) - `LLMClient.chat()` empty-content retry (D1–D3) via `_chat_once` + `_EmptyContentError` (carries `finish_reason`), under `BOR_LLM_RETRIES`/`BOR_LLM_RETRY_DELAY` — verified in diff - `missing_folder_summaries()` + `generate_folder_summaries(only_missing=…)` — verified; `folder_summary_table_empty` deleted, both sync gates switched to the gap probe - `.env.example` comments updated (chat-turn stream + one-shot summary calls) **Test / lint / coverage results** - `uv run pytest --cov=app --cov-report=term-missing` → **1988 passed**, coverage **99%** (gate >90%) - `uv run pytest tests/e2e/test_oneshot_llm_retry.py -v --no-cov` → **2 passed** (isolated) - Regressions, each isolated: `test_ls_tree_drilldown` 3 passed, `test_sync_button` 3 passed, `test_local_directory_sources` 3 passed, `test_llm_retry` 4 passed - `uv run ruff check . && uv run pyright` → clean (0 errors) **Completion criteria:** retry-then-recover unit-pinned ✓ · exhaustion + `BOR_LLM_RETRIES=0` byte-identical ✓ · streaming path untouched ✓ · gap-fill both sync paths, other rows byte-identical incl. `updated_at` ✓ · no-gap zero-burn ✓ · phase E2E green ✓ · regression E2Es green ✓ · full suite + >90% + lint/types ✓ · no completed-phase behavior change (full suite green) ✓. Commit left to the harness per executor rules (working tree, 16 files). **Deviations:** none. **Next pending phase:** `97_kb_tree_catalog`.	2026-09-11 13:16:20 -04:00
ducoterra	bcaef800c5	phase: 95_read_truncation_cap ... All gates are green. Final verification is complete — no fixes were needed; the phase is fully implemented and passing. **Phase 95 final verification report** - Verified all 3 tasks already implemented (task files in `complete/`): read cap + notice + `ToolResultPiece` (task 01), `tool_result` SSE + live/saved/shared marker (task 02), E2E suite (task 03). - Code checks passed: `BOR_READ_MAX_CHARS` (default 128 000, validator), pinned `READ_TRUNCATION_NOTICE` + `TRUNCATION_MARKER`, byte-identical at/under-cap read, holder `read_truncations` (no `tool_calls` impact), piece order (after `tool`, before next round), `ChatToolResultEvent`, `ToolCall` back-compat fields, `app.js` live/restore handlers, `shared.js`, `.truncated-note` CSS, `.env.example` entry, mock-LLM echo script. - **Tests:** `uv run pytest` → 1966 passed; `uv run pytest --cov=app --cov-report=term-missing` → all green, TOTAL **99%** (>90% gate). - **E2E:** `uv run pytest tests/e2e/test_read_truncation_cap.py -v --no-cov` → **3 passed** (frame order + live marker + LLM notice via echo; save→shared fidelity; short-read control). - **Regression (isolated):** `test_agent_document_tools` 4 ✓, `test_chat_history` 5 ✓, `test_share_chat` 4 ✓, `test_big_read_progress` 4 ✓, `test_stop_generation` 3 ✓. - **Lint/types:** `uv run ruff check .` → All checks passed; `uv run pyright` → 0 errors, 0 warnings. **Completion criteria:** ① over-cap read → first-cap-chars + marker + pinned notice — ✓ (unit-pinned: at-cap/cap+1/notice tests); ② user marker live/saved/shared — ✓ (E2E + frontend tests); ③ at/under cap byte-identical, no frame — ✓ (unit + control E2E); ④ top-2 `<documents>` retrieval untouched — ✓ (`app/rag/retriever.py` unmodified vs HEAD); ⑤ suite green, >90% coverage, ruff+pyright clean — ✓; ⑥ no completed-phase behavior change — ✓ (all gates green; commit left to harness per pass rules). - No defects found; no changes made this pass. Next pending phase: none in `todo/` (96 is the next free number).	2026-09-11 03:42:51 -04:00
ducoterra	d4943b4822	phase: 94_ls_tree_drilldown ... All green. Verification complete. **Phase 94 — `ls` drill-down tree: final verification pass (all 5 tasks were already complete; verified, nothing to fix)** - Verified `ls` 3-level tree (`app/rag/agent.py`): `ls()` sources + summaries, `ls(source)`/`ls(source/folder)` drill-down, 50-line file cap + grep-pointer note, NOT-A-FOLDER teaching refusal - Verified `folder_summaries` (migration 0017, model, `app/rag/folder_summaries.py` generator: `FOLDER_SUMMARY_MODE` marker, fail-soft per folder, ≥2-doc scope + prune) wired change-gated in both sync paths - Verified 10-turn fixture battery verdict recorded in `TOOL_CALLING_TESTING.md` §9 (2026-09-11): turbo PASS 19/19 contract, 98.7 s (−12.5…−13.2 % vs baseline); lite PASS 18/18, 43.6 s (+7.7 %) — accuracy at/above baseline, gate met - `uv run pytest --cov=app --cov-report=term-missing` → 1939 passed, 0 failed; TOTAL coverage **99 %** (folder_summaries.py 100 %) - `uv run ruff check .` → clean; `uv run pyright` → 0 errors, 0 warnings - E2E in isolation: `test_ls_tree_drilldown.py` 3 passed; `test_agent_document_tools` 4, `test_agent_unlimited_tools` 4, `test_harness_aligned_tools` 3, `test_search_tool` 3, `test_grep_regex_teaching` 2, `test_response_to_docs` 4 — all passed (read/grep contracts untouched) - Dedicated folder-summary tests (fail-soft, prune, both sync paths, migration): 46 passed - Completion criteria: all 6 met; working tree holds only phase-94 changes (commit left to harness per protocol) **Next pending phase:** `95_read_truncation_cap`	2026-09-11 00:59:35 -04:00
ducoterra	9188be259b	phase: 93_theme_semantic_completion ... All verification is complete. Final report: **Phase 93 — Theme semantic completion: FINAL VERIFICATION PASS — ALL GREEN** - Verified full implementation in tree: migration `0016` (8 nullable semantic columns, applied at head), 17-var `BUILTIN_COLORS`/`COLOR_FIELDS`/`effective_settings`, API validation, `#view-theme` State-colors fieldset (17 pickers), `theme.js` FIELDS/PAIRS (5→8), `.page-head` surface panel (6 shell views + doc-edit + shared.html; login card / document sticky header audited as already-surfaced), mock_llm `content: None` fix - Fixed 2 pre-existing defects (both fail identically on baseline `d4f38ad`, proven via worktree A/B): `test_nav_rename_sources` — expected nav tail missing the phase-91 "Theme" link; `test_stale_ui_copy` — now truncates `saved_chats` before/after (house `test_suggestion_chips` pattern) so the seed-chip contract is deterministic on the shared dev DB (owner's 22 saved chats triggered phase-80 last-3-questions) - Tests: `uv run pytest --cov=app --cov-report=term-missing` → **1868 passed, app/ 99%** (>90% ✓); `uv run ruff check .` → clean; `uv run pyright` → **0 errors** - E2E: dedicated `uv run pytest tests/e2e/test_theme_semantic_completion.py -v --no-cov` → **8/8 in isolation** (all-gray 17-color theme: zero residual color on saved-result/Stale/Revoked/Local/tool-call elements, text labels intact, gray heads non-transparent, pre-paint tag, Reset → byte-identical no-tag); 15 theme/header/nav/responsive suites green in isolation; full 85-file combined run: only the 2 fixed pre-existing failures + 1 combined-run artifact (`test_sync_upload_progress`, green in isolation) - Completion criteria: (1) monochrome E2E ✓ (2) default byte-identical, no `#bor-theme` tag ✓ (3) all page heads on solid surface ✓ (4) suite/coverage/lint/E2E green ✓ (5) phases 01–92 no behavior change ✓ (6) commit left to harness per protocol - Notable: cleaned stray uvicorn leftovers from prior implementation pass (owner's `--reload` dev server untouched); no deviations from the phase design - Next pending phase: `94_ls_tree_drilldown`	2026-09-10 16:43:08 -04:00
ducoterra	d4f38ad3ce	add PLAN.md	2026-09-10 13:08:55 -04:00
ducoterra	bf308eb795	chore(agent): phase 93-95 roadmap from TODO.md — theme completion, ls tree drill-down, read truncation cap ... Convert the three unchecked TODO.md items into an executable phase roadmap (Protocol B, appended after phase 92): - 93_theme_semantic_completion (TODO L3): the ok/err/accent state families become Theme-tab-controlled (B3 revised, owner permission 2026-09-10) + surface panels behind every page head - 94_ls_tree_drilldown (TODO L4): ls becomes a source -> folder -> file tree with sync-time lite-model folder summaries; controlled tool-calling battery as the accuracy/performance gate - 95_read_truncation_cap (TODO L5): read capped at BOR_READ_MAX_CHARS (128k chars ~= 32k tokens, spec'd on the 128k-token minimum context), LLM-visible truncation notice pointing at grep, new tool_result SSE event (A15 extension) + the visible UI marker Owner decisions (B3 / A7 scope / A15) are recorded in the phase files; .agents/PLAN.md is being redone separately per the owner.	2026-09-10 11:37:25 -04:00
ducoterra	dac4a3eec0	docs(agent): restore master plan at .agents/PLAN.md with locked decisions through phase 92 ... Re-lands the master plan (removed from VCS in 281f355 as .agent/PLAN.md) at .agents/PLAN.md — the path AGENTS.md and the codebase's PLAN §… references use. Rebuilt from the original text plus every owner-permitted revision recorded in the completed phases: A1–A17 anchors with the full revision log (auth, SSE thinking/tool/retry events, agent tools, history, SPA shell), new A18–A20 (docs push, deploy caching, security headers), current data model (11 tables), locked persona + <tools> copy, current UI/UX contracts (46rem/92rem column, theme tab, never-stale feedback, no autoscroll), the full per-turn log line, and the phase 01–92 roadmap with the open TODO.md items as next up.	2026-09-10 09:28:58 -04:00
ducoterra	df91c6316c	phase: 92_theme_save_and_coverage ... **Phase 92 final verification pass — all green.** This pass re-verified the completed tasks (all 5 task files already in `complete/`) against every completion criterion; no defects found, nothing to fix. - Verified: 9th identity var `grid_line` end-to-end (migration `0015` at head, model/`theming.py`/schemas/API, 422 + built-in→NULL tests present); `styles.css` zero hardcoded literals outside `:root` + derived `--brand-*` vars; 9th picker in theme form; wordmark themed; `theme.js` save/reset/re-show/mount live-sync; dedicated E2E suite + phase-91 suite updated. - `uv run pytest --cov=app --cov-report=term-missing` → **1845 passed, exit 0, TOTAL 99%** (>90%) - `uv run ruff check .` → clean; `uv run pyright` → 0 errors, 0 warnings - `uv run pytest tests/e2e/test_theme_save_and_coverage.py -v --no-cov` → **3 passed** (save-live, reset-live, whole-site) - `uv run pytest tests/e2e/test_admin_theme_tab.py -v --no-cov` → **5 passed** - Criteria: (1) Save/Reset repaint open page, no nav, SPA-nav survives, pre-paint intact ✅; (2) both `rg` gates green (only `:root` + documented `#fff` Stop label; zero SVG hex attrs), grid/selection/hovers/wash/wordmark E2E-proven ✅; (3) no-op contract live-checked: row-less `/` = no tag + exact A1 CSP, grid-only row = 9-var tag in `COLOR_FIELDS` order + sha256 CSP, with-row ≡ row-less bytes ✅; (4) full suite/coverage/lint/both E2E ✅; (5) commit left to the harness per instructions. - Deviations (previously made, probe-verified, kept): live repaint uses CSSOM `<html>` overrides because Chromium blocks `<style>` textContent mutations under the locked sha256-only CSP (tag text still mirrors the next load; `<html>` style exact-saved after Save, empty after Reset); wordmark themed via 3 `.brand-mark` CSS rules instead of inline styles (task 03's inline attrs were CSP-blocked — fixed during task 04). - Next pending phase: none — `todo/` contains only `92_theme_save_and_coverage`.	2026-09-10 00:23:08 -04:00
ducoterra	d22d260b8b	phase: 91_admin_theme_tab ... All verification is complete — this pass needed no code changes. Final report: **Phase 91 — Admin Theme tab: final verification pass (all 6 tasks already in `complete/`)** - Verified pre-paint theming end-to-end: `ui_settings` store + resolver, admin `GET/PUT /api/ui-settings`, `CachingMiddleware` inline-`<style id="bor-theme">` injection before `</head>` (incl. `/shared/<token>` prefix branch, unit-pinned), CSP sha256 exemption for the inline tag, Theme tab shell + `theme.js` editor, CSS-file theming fully retired. - No defects found; zero changes made — working tree left exactly as the task executors left it. - Tests: `uv run pytest --cov=app` → 1841 passed, 0 failed (TOTAL coverage **99%**; theming/ui_settings/caching all 100%); `uv run pytest tests/e2e/test_admin_theme_tab.py -v --no-cov` → **5 passed** in isolation. - Lint/types: `uv run ruff check .` → All checks passed; `uv run pyright` → 0 errors, 0 warnings. - Criteria: (1) unset deployment byte-identical, no `#bor-theme` anywhere — ✓ (unit no-op test + E2E reset byte-compare); `rg "BOR_THEME|themes/"` → single hit is the permitted doc-history comment in `frontend/index.html`. (2) admin-only gate + 403s for anonymous and token users — ✓ (E2E test 3). (3) saved theme inline before `</head>` on every page incl. `/shared/<token>`, computed `--brand` on first paint for admin + anonymous — ✓ (E2E test 2 + unit). (4) reset → byte-identical; 5 contrast pairs warn <4.5:1, non-blocking — ✓ (E2E tests 4–5). (5) suite green, >90% coverage, lint clean — ✓. (6) commit deferred to harness per rules. - Notable: `.agents/PLAN.md` is absent from the repo — the phase overview's Design section was used as the binding spec; no deviation resulted. - Next pending phase: **none** — 91 is the last phase in `todo/`.	2026-09-09 17:22:24 -04:00
ducoterra	3095c4c577	phase: 90_upload_no_scan ... All verification is complete and green. Final report: **Phase 90 (upload_no_scan) — final verification pass: all criteria verified, no fixes needed** - Verified (not re-implemented): all 3 tasks already complete; working tree carries the phase's uncommitted changes - Upload pipeline: `_run_upload` stops after row upsert; success = `{"message": "uploaded"}`, null/0/0 progress; `UploadOut` removed from `app/schemas.py`; gates/unpack/swap/failed states intact - Copy: button "Upload", bare "Processing…", result line "Uploaded \<name\> — press Sync sources to import it."; hint + caption re-pointed at Sync; no "Upload &" remnants in `frontend/` - Tests: `pytest tests/unit/test_git_sources.py tests/integration/test_git_sources_upload.py tests/unit/test_frontend_sync_upload.py` → 56 passed; E2E phase suite `tests/e2e/test_upload_no_scan.py` → 3 passed (zero docs after upload; ignore edit honored by Sync — 2 added, `notes/skipme.md` excluded; re-upload in-place, still zero docs); affected suites `test_archive_upload_sources.py` + `test_sync_upload_progress.py` + `test_source_removal_cleanup.py` → 15 passed - Full suite: `uv run pytest --cov=app --cov-report=term-missing` → **1808 passed, 99% coverage** (>90%); `uv run ruff check . && uv run pyright` → clean, 0 errors **Completion criteria:** 1. Upload settles "ready for sync", zero docs, row + ignore editor — ✅ (E2E test 1) 2. Button "Upload", no "Upload &" copy — ✅ (`rg` empty in frontend/, app/, tests/) 3. RAG-page "Sync sources" imports upload honoring edited ignores — ✅ (isolated E2E test 2) 4. Suite green, >90% coverage, lint clean — ✅ (99%, ruff+pyright clean) 5. Atomic commit — ✅ left to harness per executor rules (no git add/commit run; tree staged-ready) **Deviations:** `regenerate_overview` still appears once in `git_sources.py` — inside `delete_git_source` (phase-69 locked total-removal behavior, not the upload leg; upload leg is scan-free). `.agents/PLAN.md` does not exist in this repo; locked decisions A1–A4 were enforced from the phase files. **Next pending phase:** `91_admin_theme_tab` (in `todo/`).	2026-09-09 14:08:18 -04:00
ducoterra	0c8a7b9974	chore(agent): phase 90-91 roadmap from TODO.md — upload without scan + admin theme tab	2026-09-09 08:50:14 -04:00
ducoterra	8c706259e9	phase: 89_source_ignore_paths ... All verification complete — TODO.md was already cleared in the roadmap commit; the two extra unit-test diffs are necessary fake-signature adaptations for the new keywords. Everything is green, no fixes were needed. ## Phase 89 — final verification pass: ALL GREEN **Verified (all 6 task files present in `complete/`):** - `git_sources.ignore_paths` JSONB column + migration 0013; `alembic downgrade -1 && upgrade head` round-trips (head `0013`) - Importer: `normalize_ignore_path`/`is_ignored`/`_ignore_for_root`, `ignore` in walk + progress pre-walk, `ignore_by_root` in `import_sources` - API: GET/POST carry list; admin-only `PATCH` (replace, 404/422 fixed details, anonymous 403) - Pipelines wired: `_run_sync`, `_run_upload` re-upload, `scripts/import_docs.py` - Sources-page box: dialog, §7.4 save lifecycle, `N ignored` tag, a11y; env rows get no box **Test/lint results:** - `uv run pytest` → 1808 passed - `uv run pytest --cov=app --cov-report=term-missing` → TOTAL **99%** (>90%) - `uv run pytest tests/e2e/test_source_ignore_paths.py -v --no-cov` → 6 passed (isolated, DB up) - Regressions in isolation: `test_git_sources_admin` 6, `test_archive_upload_sources` 5, `test_sync_button` 3, `test_smoke` 3 — all passed - `uv run ruff check . && uv run pyright` → clean (0 errors) **Completion criteria:** box→PATCH 200→count+GET round-trip ✅ · sync excludes `ignore/` (no docs/chunks/embeddings/summaries) + prunes newly-ignored (pruned==2) ✅ · no-mid-path rule E2E ✅ · PATCH 404/422/replace/clear/403 ✅ · full gate green ✅ · commit + phase move left to harness per rules. **Deviations:** none blocking — E2E pins `files == 4` (overview's "5" was an off-by-one vs its own 6-file tree, documented in-test); `tests/unit/test_importer.py` + `test_sync_button.py` test-double fakes extended for the new keywords (needed for the suite to stay green). **Next pending phase:** none — `todo/` holds only this phase.	2026-09-09 01:45:42 -04:00
ducoterra	0495e4e7e4	chore(agent): phase 89 roadmap from TODO.md — per-source ignore paths for imports	2026-09-08 22:55:58 -04:00
ducoterra	1f0e4c6bb9	fix(ui): bind the shared header controls on explicit init, not at module import ... header.js's control bindings (sign-out, the mobile hamburger, the SINGLE New chat button) ran at module import. The Containerfile stage-1 build inlines header.js into every bundle that imports it (the shell's app.js, token-gate.js and the router's lazy views), so the shell page registered the #nav-toggle click handler twice, and two toggle handlers cancel each other — one tap = open + close = the mobile menu dead in the deployed image only. The dev tree's single ESM instance (and every test that runs against it) never showed it; a lazy view load adding a THIRD copy made the menu work again, which is why the failure looked state-dependent (chat cold boot dead, /sources.html alive). - header.js: the three bindings move into an exported bindSharedHeaderControls(), guarded by a marker on <body> (NOT module state — every bundle copy has its own function instance), so later bundle copies and repeated inits (the token gate's mid-page header re-boot) are no-ops; header.js is now side-effect-free at top level, which also lets esbuild tree-shake the dead copies out of the bundles that do not need them (the token-gate bundle no longer carries the binding code at all) - app.js / login.js / shared.js / document.js: call bindSharedHeaderControls() once at module top — import-time parity, unconditional (no async boot path to miss); doc-edit.js ships no header controls and calls nothing - unit: tests/unit/test_header_bindings_once_per_document.py pins the contract — the init export, the document-level idempotency marker, all three bindings inside the init, NO top-level addEventListener remaining, and exactly one module-top call in each header-carrying page script; stale import-time docstrings in the legacy header pins updated to the new contract Verified: full unit + integration suite (1746 passed), the hamburger / pinned-composer / smoke E2E stories green in isolation, ruff + pyright clean. Containerfile-equivalent esbuild 0.25.5 rebuild probed in Chromium: exactly ONE #nav-toggle click listener on chat cold boot, /sources.html and login.html, and a touch tap opens the menu in all three states (pre-fix production: two listeners on cold boot = dead, three on sources = alive).	2026-09-08 22:31:45 -04:00
ducoterra	4d287155c0	phase: 88_mobile_chat_hamburger_boot ... All completion criteria verified green. Final state confirmed: phase stays in `todo/` per A4 (owner device gate), task files in `complete/`, no `app/` changes, no commits made (harness commits). ## Phase 88 — final verification pass report **Verified (all 6 tasks already complete):** `touch-action: manipulation` on mobile `#nav-toggle`; `#view-chat.chat-booted` double-rAF sticky handover (CSS gate + app.js boot IIFE); `body.nav-menu-open` marker in `setNavMenu` + ≤640px `visibility: hidden` rule; router boot contract (`wasMounted && !opts.boot` + `boot: true`); new unit module (10 pins) + 4-test real-touch E2E story. **Test / lint / coverage:** - `uv run pytest --cov=app --cov-report=term-missing` → 1741 passed, **99%** on `app/` (>90% ✓) - `tests/e2e/test_mobile_chat_hamburger_boot.py` 4/4, `test_mobile_hamburger_nav.py` 8/8, `test_pinned_composer.py` 4/4, `test_smoke.py` 3/3 — each in isolation, `--no-cov` ✓ - `uv run ruff check .` clean; `uv run pyright` 0 errors ✓ **Completion criteria:** (1) 360px cold-boot touch-action + sticky handover + tap-opens-menu-with-cluster-hidden (E2E 1–2) ✓; (2) boot fires no `bor:view-refresh`, re-show fires exactly one, `/sources.html` regression (E2E 3–4) ✓; (3) full gate green ✓; (4) diff limited to 4 assets + 2 new tests + phase files, 0 changes in `app/` ✓; (5) commit deferred to harness per executor rules ✓; (6) owner device re-verification **pending** (A4 — gates the archive; no Owner report recorded yet). **Deviations (both documented in-tree):** unit pins updated in `test_frontend_router.py`/`test_hamburger_nav.py` (their exact-text pins collided with the mandated new guard/marker text — without them the suite goes red); `boot: true` count pinned at 1 not 2 (codebase has one boot call site, no `history.state` branch — verified against git HEAD). **Next pending phase:** none in `todo/` — pipeline awaits the owner's on-device report (archive, or `?dbg=nav` instrumentation follow-up if the menu is still dead).	2026-09-08 16:02:45 -04:00
ducoterra	10fd367962	fix(chat): render typing-indicator elapsed hint as horizontal text ... The phase-87 ".typing-elapsed" dot-geometry reset (specificity 0,1,0) lost every shared declaration to the ".typing span" dot rule (0,1,1): the hint rendered as an 8x8px bouncing dot and the "Ns" text wrapped one character per line below the bubble (overflow-wrap: anywhere on .bubble). Phase 87's e2e checked text values only, so the squish shipped unseen. - retarget the reset at ".typing span.typing-elapsed" (0,2,1) so it actually wins; center the dots while the hint line is taller - unit: pin the reset's selector context (specificity regression guard) - e2e: layout pin on the live hint — no dot animation, not an 8px box, horizontal single-line bounding box - before/after verification screenshots in .agents/reports/87_big_read_progress/ Verified: unit 41 passed, phase-87 e2e 4 passed (isolated), ruff + pyright clean.	2026-09-08 10:03:10 -04:00
ducoterra	5abe8871e3	fix(chat): raise pre-token guard from 120 s to 300 s ... The client-side TURN_TIMEOUT_MS was the binding constraint: turns with slow prompt processing (no first SSE frame within 120 s of visible time) errored with the 'stuck' copy even though nginx (300 s) and BOR_LLM_TIMEOUT (300 s) would have let them run. Raise the guard to 300 s so the upstream timeouts are reachable, and re-pin the tests: the unit constant pins and the fake-clock E2E timeline (295 s hidden + 290 s after the re-arm = 585 s: past the original 300 s deadline, short of the re-armed 595 s deadline). Verified: tests/unit (full, 100% pass), tests/e2e/test_hidden_tab_stream.py and tests/e2e/test_loading_feedback.py in isolation.	2026-09-08 09:37:33 -04:00
ducoterra	7cfe58fb21	phase: 87_big_read_progress ... All criteria verified — no defects found, nothing to fix. Final report: **Phase 87 — big read progress: final verification pass (all tasks already complete in `complete/`)** - Verified implementation vs. overview: `TOOL_LINE_ELAPSED_AFTER_MS = 5_000`, single live `armToolLineClock` site, settle on thinking/retry/delta, `stopToolLineClock` in `setUiState`, visible `.typing-elapsed` (aria kept byte-identical), CSS AA pairing — all match design; `app/` byte-identical (0 changes) - **Tests/lint (exact outcomes):** - `uv run pytest --cov=app --cov-report=term` → 1732 passed, coverage **99%** (>90% ✓) - `uv run pytest tests/e2e/test_big_read_progress.py -v --no-cov` → **4 passed** (ticking suffix, visible hint, settle, no-timer restore) - `test_thinking_display.py` → 5 passed · `test_agent_document_tools.py` → 4 passed · `test_smoke.py` → 3 passed (all isolated) - 3 pinned frontend suites + new unit pins → 62 passed · `uv run ruff check . && uv run pyright` → clean, 0 errors - **Completion criteria:** E2E pins 1–4 ✓ · guard/state-machine byte-identical ✓ (diff is additive only) · diff scope limited to `app.js`, `styles.css`, 2 new test files, phase files; nothing in `app/` ✓ - **Notable:** no deviations; commit + `00_phase.md` move left to the harness per executor rules (task files already in `complete/`) - **Next pending phase:** none — `todo/` contains only this phase (87 is the last)	2026-09-08 05:51:23 -04:00
ducoterra	0f6b9ff7e6	phase: 86_history_page_width ... All criteria verified. Final report: **Phase 86 final verification pass — all green, no defects found.** - **Verified (previously implemented):** `position: relative` on shared `.table-wrap` (the one-rule A3 fix, +12 lines in `frontend/assets/styles.css`); unit pin `tests/unit/test_table_wrap_stacking.py` (3 tests); E2E story `tests/e2e/test_history_page_width.py` (5 tests: History 626→≤375, Tokens 618→≤375, SPA switch with window-sentinel, RAG regression, desktop 1280×800) - **Tests/lint (this pass):** `uv run pytest` → 1720 passed · `uv run pytest --cov=app --cov-report=term-missing` → TOTAL **99%** (>90% floor) · E2E in isolation: `test_history_page_width.py` 5 passed, `test_chat_history.py` 5 passed, `test_api_tokens.py` 9 passed, `test_smoke.py` 3 passed · `uv run ruff check . && uv run pyright` → clean, 0 errors - **Completion criteria:** ① 375px direct+SPA `scrollWidth ≤ innerWidth` on History/Tokens — PASS (E2E pins) ② in-card scroll preserved + full-width + a11y spans in DOM — PASS ③ Sources + desktop regression — PASS ④ full suite/coverage/E2E/lint gates — PASS ⑤ `git diff --stat` limited to `styles.css` (+12) + new test files + phase files, no `app/`/markup/JS — PASS ⑥ commit/move — left to harness per executor rules (working tree intact, `todo/` dir removal already reflected) - **Notable:** red→green (CSS reverted → 626px failure) and manual live check already recorded in `.agents/reports/86_history_page_width/`; pre-existing untracked `.agents/remediation_plan.md` (Sep 7 security audit) untouched - **Next pending phase:** `87_big_read_progress`	2026-09-08 02:38:45 -04:00
ducoterra	412a560348	phase: 85_mobile_menu_gate_overlap ... All verification complete. Final report: **Phase 85 final verification pass — all green** (tasks 01–03 already complete; independently re-verified from scratch) - Verified fix in tree: `styles.css` `.auth-gate` z-index 500→15 + rewritten stacking comment (no `z-index: 500` left); `index.html`/`document.html` comment-only; `token-gate.js` docstring-only (logic byte-identical); `test_mobile_hamburger_nav.py` real-click conversion + new `test_anonymous_toggle_tappable_with_gate_up`; new `tests/unit/test_gate_header_stacking.py` (3 pins); `test_api_tokens.py` untouched - `uv run pytest` → 1717 passed, 1 warning (exit 0) - `uv run pytest --cov=app --cov-report=term-missing` → TOTAL **99%** (>90%) - E2E in isolation: `test_mobile_hamburger_nav.py` **8 passed**; `test_api_tokens.py` **9 passed** (unchanged); `test_smoke.py` **3 passed**; `test_document_viewer.py` **7 passed** - `uv run ruff check . && uv run pyright` → clean / 0 errors - Live probe (375×812, anonymous, fresh server): on `/` and `/history.html` `elementFromPoint` at toggle → SVG `path`, never `#auth-gate`; real click opens menu (`aria-expanded=true`); exactly one visible nav link (Chat) + sign-in copy; Chat link topmost over gate; `#main` inert — criteria 1, 2, 3 confirmed directly - Criteria: (1) real-click menu on / + /history ✅ (2) dropdown above gate ✅ (3) anonymous contents + #main inert ✅ (4) admin byte-identical (phase-46 tests green) ✅ (5) doc-viewer gate under bar (CSS pin + doc-viewer suite) ✅ (6) full gate green ✅ (7) diff scoped to the 5 code files + new unit test + phase files, nothing in `app/` ✅ (8) commit + todo→complete move left to harness per executor rules (task files already in `complete/`) - Note: `.agents/remediation_plan.md` (untracked) is a pre-existing artifact of the earlier security audit — left untouched; a missing "N passed" line seen mid-pass was my own `-q`+addopts `-q` = `-qq` quirk, not a defect - Next pending phase: `86_history_page_width`	2026-09-08 01:56:37 -04:00
ducoterra	f4150421bb	phase: 84_docs_push_error_sanitization ... **Phase 84 — final verification pass: all green, no defects found** - Verified implementation: `app/core/errors.py` (verbatim lift of sync masker), `app/api/sync.py` alias import, docs-push 502 `detail=sanitize_error(str(exc))`, all five `llm.py` error sites sanitized; new/extended test pins in place - Tests: `uv run pytest` → **1714 passed, 0 failed**; targeted pins (new unit ×2 + integration ×1, existing 502 pin) → 13 passed; sync/git-sources regression → 67 passed - Coverage: `uv run pytest --cov=app --cov-report=term-missing` → **99%** (`app/core/errors.py` 100%, `app/rag/llm.py` 100%) — >90% met - E2E isolation: `uv run pytest tests/e2e/test_smoke.py -v --no-cov` → **3 passed** - Lint/types: `uv run ruff check .` → clean; `uv run pyright` → **0 errors** - Criteria: 502 masks `*****@`/never token + row untouched ✅; LLM base-URL masked, credential-free strings byte-identical ✅; `_CREDS_RE` only in `app/core/errors.py` (working-tree grep) ✅; full gate green ✅; `git diff --stat` limited to the 4 app files + 2 modified test files + 3 phase task files (untracked: new module, new unit test, complete/ dir, reports, audit plan) ✅ - Commit/phase move left to the harness per instructions (task files already in `complete/`) - No deviations; nothing to fix - Next pending phase: **85_mobile_menu_gate_overlap**	2026-09-08 01:11:45 -04:00
ducoterra	fa189dede7	phase: 83_chat_save_payload_limits ... All verification criteria are confirmed green. Final report: **Phase 83 — final verification pass (all tasks already complete; verified, nothing to fix)** - Verified `app/schemas.py` carries every A1 cap (text/thinking 32 000, sources 20, suggestions 50×200, tools 50, SourceRef 120/1000/500, ToolCall 100/2000, messages ≤200) — boundary-only, `app/api/chats.py` untouched - Verified all test pins exist and pass: 32 unit boundary tests (both edges of every cap + round-trip), 4 oversized-422 integration pins (text/201-msgs/21-sources/PUT, each with nothing-stored/row-unchanged assertions), A3 SSE done-event pin at column maxima, dedicated E2E (anon 40 000-char POST → 422 + small save → 201) - `uv run pytest tests/unit/test_schemas.py -v` — 32 passed - `uv run pytest tests/integration/test_chats_api.py` — exit 0; A3 pin — passed - `uv run pytest tests/e2e/test_chat_save_payload_limits.py -v --no-cov` — 2 passed (isolation); `uv run pytest tests/e2e/test_chat_history.py -v --no-cov` — 5 passed - `uv run pytest` — exit 0 (~1 704 tests, 0 fail/skip); `uv run pytest --cov=app` — TOTAL 99%, `app/schemas.py` 100% (>90% ✓) - `uv run ruff check . && uv run pyright` — clean (0 errors) - `git diff --stat` — only `app/schemas.py`, 3 test files (+`test_chat_api.py` A3 pin, sanctioned by task 02), phase files; no `app/api/chats.py`/`alembic`/`frontend`/`pyproject`/`uv.lock` diff ✓ - All completion criteria met; commit + phase move left to the harness per pipeline rules (changes stay in working tree) - Deviation note: list caps use `max_length` instead of `max_items` — identical in pydantic 2.13 (`max_items` is a deprecated alias); both boundaries behaviorally pinned - Next pending phase: `84_docs_push_error_sanitization`	2026-09-08 00:33:21 -04:00
ducoterra	e29d68d9f0	phase: 82_security_headers ... All completion criteria verified green — no defects found, nothing to fix. Final report: **Phase 82 (security headers) — final verification pass: all green** - Verified prior-run implementation: `app/core/security_headers.py` (pure-ASGI, header-only, exact A1 CSP), registration in `app/main.py` after `configure_caching` (outermost), unit/integration/E2E suites. - Deviation confirmed sound: `data:`-URI favicon (blocked by locked CSP) → static `frontend/assets/favicon.svg` in 5 templates + Containerfile `cp`; SVG element byte-identical to the old data-URI (verified programmatically); serves 200 with all three headers. - Curl check (server booted like e2e conftest, log: `/tmp/curl_security_headers_final.log`): `/`, `/api/health`, `/assets/styles.css`, `/nope` (404) → all three headers, CSP exactly `default-src 'self'; base-uri 'none'; frame-ancestors 'none'`. - `uv run pytest tests/unit/test_security_headers.py tests/integration/test_security_headers.py -v --no-cov` → 13 passed (incl. SSE byte-identity pin). - `uv run pytest tests/e2e/test_security_headers.py -v --no-cov` (isolated) → 2 passed (headers + zero CSP violations + painted page). - SSE tripwire `uv run pytest tests/e2e/test_chat_rag.py -v --no-cov` → 3 passed. - `uv run pytest --cov=app --cov-report=term-missing` → 1665 passed, app/ 99% (>90%); `uv run ruff check . && uv run pyright` → clean (0 errors). - `git diff --stat` limited to phase-82 files + the two documented deviations (favicon set, `tests/unit/__init__.py`); no `pyproject.toml`/`uv.lock`/JS diffs. - Commit + phase-dir move left to the harness per pipeline rules (not executed by me). Next pending phase: `83_chat_save_payload_limits`.	2026-09-07 23:54:41 -04:00
ducoterra	42a4222949	phase: 81_login_rate_limit ... All gates verified. The phase is complete — everything was already implemented by prior task runs; this pass verified each completion criterion end-to-end and found no defects. **Phase 81 final verification report** (tasks 01–03 all present in `complete/`; no code changes needed this pass) - Verified: `app/core/rate_limit.py` (stdlib sliding window, fail-open) + both login routes' 429 pre-check/record/reset wiring + all unit/integration pins present (11th-429, blocked-success-still-429, clean-counter reset, shared counter, autouse `clean_rate_limit` fixture documented). - Live check (task 03): dev server + 11 rapid wrong logins → `401 ×10, 429`; 429 body carries `retry-after: 900` + generic detail; server restarted (per-process counter cleared by design). - `uv run pytest tests/unit/test_rate_limit.py -v --no-cov` → 10 passed - `uv run pytest --cov=app --cov-report=term-missing` → 1652 passed, **TOTAL 99%** (>90%; rate_limit.py 100%, auth.py 100%) - `uv run pytest tests/e2e/test_smoke.py -v --no-cov` (isolation) → 3 passed - `uv run ruff check . && uv run pyright` → All checks passed / 0 errors, 0 warnings - Completion criteria: all met, except commit + phase-dir move — per harness rules I left all changes uncommitted in the working tree (harness commits atomically and moves the phase). - Diff scope: exactly `app/core/rate_limit.py`, `app/api/auth.py`, `tests/unit/test_rate_limit.py`, `tests/integration/test_auth_api.py` + phase files; `pyproject.toml` / `uv.lock` / `frontend/` untouched. - Deviations: none in code; commit/move deferred to harness as instructed. - Next pending phase: `82_security_headers`.	2026-09-07 23:08:46 -04:00
ducoterra	894637108c	add configurable llm timeout	2026-09-07 22:01:53 -04:00
ducoterra	e2bed52751	chore(agent): phase roadmap from TODO.md, 3 phases (85-87) ... TODO.md L3-L5 converted to executable phases (protocol B - append): - 85_mobile_menu_gate_overlap (L3): the phase-79 token gate (z 500, fixed full-viewport) sits above the sticky header (z 20), so an unauthenticated visitor's tap on the mobile hamburger hits the gate overlay and the menu is unreachable until login. Reproduced: elementFromPoint at the toggle resolves to #auth-gate on every shell view; real clicks are intercepted. Fix: gate at z 15 (below the header + its mobile dropdown), #main stays inert-locked; the phase-46 E2E's programmatic-click workaround becomes a real click + a new TODO-regression pin. - 86_history_page_width (L4): at 375px the History page panned ~250px into a blank region (document scrollWidth 626) although the table scrolled fine inside its card. Root cause: the .visually-hidden Actions header span is position:absolute with no positioned ancestor, so its 1px box (at the 640px table's right edge) leaks into the document's scrollable overflow. Fix: position:relative on the shared .table-wrap card (the identical Tokens-view defect, measured 618, is fixed by the same rule; RAG is clean and pinned). New E2E story. - 87_big_read_progress (L5): after a tool read the UI sat on a static 'Reading <path>' line while the model prefilled the big context - the turn looked frozen. Frontend-only: a ticking '(Ns)' suffix on the latest tool line after 5s of frame silence (settle on the next frame, live-only - restored lines stay timer-free) + the existing 10s aria-only typing clock promoted to a visible 'Ns' hint. New source-level unit pins + slow-proxy E2E story (deterministic >=6s gaps via the mock tool flow). TODO.md cleared (items now live in .agents/phases/todo/). The pre-existing uncommitted 81-84 phases + remediation_plan.md are a separate workstream and are NOT part of this commit.	2026-09-07 21:12:03 -04:00
ducoterra	7baca3d289	update README	2026-09-07 14:26:26 -04:00
ducoterra	2174caff33	fix button widths on mobile	2026-09-07 14:18:45 -04:00
ducoterra	f664aafeed	fix(ui): give the mobile refresh controls labels and full width ... At <=640px the RAG "Sync sources" pill and the History "Refresh" pill squeezed down to tiny icon-only buttons — hard to discover and tap on a phone. They are now full-width labeled pills: - the RAG page-head row wraps so the Sync pill drops below the "Knowledge base" title at full width; the History page-head already wrapped the pill below its title block - the Sync label's min(16rem, 40vw) cap lifts on mobile (min-width: 0 engages the ellipsis) so the live-file text truncates against the full width instead of the 40vw cap - the Refresh glyph joins its visible label (it stays hidden on desktop, where the label carries the pill) This matches the established mobile full-width pill language (New chat / Share / stale-ban Regenerate). The three unit tests that pinned the old icon-only CSS are updated to pin the new behavior.	2026-09-07 14:16:41 -04:00
ducoterra	7fce6572d0	feat: phases 77–80 — navbar view refresh, static background, API tokens, history suggestion chips ... Single consolidated commit for four completed, validated phases (77, 78, 79, 80). The pipeline run left all work uncommitted because the harness commits only with PHASE_COMMIT=1 while child executors are forbidden from committing; the phases themselves all passed validation and moved to .agents/phases/complete/. Phase 77 — navbar view refresh - router.js dispatches bor:view-refresh on re-show / active re-click / popstate (gated on wasMounted; first show and boot exempt) - History / RAG / Sources / Tuning re-fetch on refresh (admin branch); Chat deliberately excluded (stream survival) - History "Refresh" button (admin-only, in-flight disable + status line) - New story suite tests/e2e/test_navbar_refresh.py (7 tests) Phase 78 — static background - Removed the animated glow layers; static 44px grid over the flat --bg canvas; default and reduced-motion renders byte-identical - Updated background/theme E2E suites; removed bg-glow test pins Phase 79 — API tokens - api_tokens model + migration 0012; hash-only token service - Admin tokens API + Tokens admin view; POST /api/token-auth; live-revoking require_user on chat / suggestions / document content - Frontend token gate with localStorage cache; anonymous E2E suites migrated to token login - New story suite tests/e2e/test_api_tokens.py (9 tests) Phase 80 — history suggestion chips - last_questions() endpoint with SEED fallback; startNewChat() refetch - Seed-semantics docs (config.py, .env.example, README) - Integration state matrix + E2E suite rewritten to the 4 chip states Also included: phase-76 report artifacts and the repo restore-test-db skill (previously untracked), scripts/* ruff fixes from phase 77. Final gate state (phase 80 final pass, covers everything above): - uv run pytest --cov=app → 1637 passed, 0 failed, app/ coverage 99% - uv run ruff check . && uv run pyright → clean, 0 errors - Per-phase story E2E suites green in isolation	2026-09-07 12:39:01 -04:00
ducoterra	495d042a98	chore(agent): phase roadmap from TODO.md — 4 phases (77–80) ... Protocol B append: navbar refresh + History refresh button (77, TODO L3), static background — glow layers removed (78, TODO L4), admin-issued API tokens with the in-app gate + browser caching, only shared chats stay anonymous (79, TODO L5), onboarding chips as the last 3 questions asked with the env seed only before the first (80, TODO L6). TODO.md cleared — its items now live in .agents/phases/todo/. Owner-confirmed assumptions recorded in each phase overview (A1–A7, chat 2026-09-06).	2026-09-06 23:54:11 -04:00
ducoterra	b78afc08f2	docs(bench): add chat model results to CSV benchmark ... Added 6 rows for chat model results (lite + turbo, fixture + derived) to benchmarks/model_benchmarks.csv.	2026-09-06 21:59:06 -04:00
ducoterra	f221b40fce	feat(agent): add CSV benchmark recorder + summary/embedding test scripts and skills ... New files: - scripts/model_benchmark.py — shared CSV recorder for all model tests - scripts/test_summary_model.py — summary model quality benchmark (coherence, coverage, brevity, hallucination) - scripts/test_embed_model.py — embedding model benchmark (dimension, cosine accuracy, speed) - .agents/skills/test-summary-model/SKILL.md — skill for testing summary models - .agents/skills/test-embed-model/SKILL.md — skill for testing embedding models - benchmarks/README.md — schema documentation Updated: - .agents/skills/test-chat-model/SKILL.md — now also records to CSV All three scripts write to benchmarks/model_benchmarks.csv with one row per run per check. The CSV accumulates results across runs for comparison.	2026-09-06 21:58:35 -04:00
ducoterra	70ba8710f3	docs(agent): record the turbo sanity check on the controlled fixture battery ... 2026-09-06 fixture runs: contract 100 %, executed 100 %, wall ~113 s (2 runs). Derived battery: FAIL only on usage floor (5/10 tool-turns) — answers seeded questions from context, which is ideal grounded behavior. Wall time ~2.8× lite (113 s vs 40 s). Model is clean.	2026-09-06 21:49:57 -04:00
ducoterra	bf64c0d7e4	docs(agent): record the lite comparison on the controlled fixture battery ... 2026-09-06 fixture runs: contract 92–93 %, executed 64–75 %, wall ~40.5 s (2 runs). Derived battery: FAIL, 36 % executed (38.3 s). Same pattern — copy-invariant re-read habit blocks the ≥90 % executed bar under current ALREADY_IN_CONTEXT refusal semantics. Model is working correctly; the bottleneck is the app's dedupe refusal, not the model.	2026-09-06 21:42:14 -04:00
ducoterra	ffa919b8bf	fix(chat): keep in-flight answers alive across in-app view switches ... Root cause (owner repro, verified in a real browser 2026-09-06): the five navbar views (Chat, RAG, Sources, Tuning, History) were separate HTML documents, so a navbar click was a REAL cross-document navigation — the chat page unloaded, the in-flight SSE fetch was aborted, and the phase-48 teardown (app/api/chat.py `finally`, "chat: turn cancelled") stopped the model. Observed: send question -> click RAG mid-stream -> click Chat -> the answer never finished: no `query_log` row, and on return a dangling question with no brain record (the pre-token pagehide partial persist skips because `acc` is empty). Phase-48 LOCKED-DECISION REFINEMENT (owner-confirmed 2026-09-06, flagged per AGENTS.md rule 3, not silently deviated): "real navigation cancels the fetch" now means LEAVING THE APP — tab close, external/other-document navigation, the Stop button. In-app navbar switches are client-side view switches and no longer cancel. Fix — Option A (SPA shell), chosen over B (Service Worker owns the stream) and C (server-side turn registry + resume): - frontend/index.html is the shell: ONE `<main id="main">` holds the five `<section class="view">` blocks; hidden views carry BOTH `hidden` and `inert` (WCAG — no focus/keyboard traversal). The shared header, the single `doc-modal-*` skeleton, and the `#app-version` footer each exist exactly once; the per-view copies from the four folded pages are dropped. - New frontend/assets/router.js (vanilla module — no framework, no bundler, No-CDN rule intact): lazy-imports a view module on FIRST show only (mount-once, hide-forever — the chat view's in-flight SSE reader persists across switches; that persistence IS the fix); intercepts same-shell navbar links with preventDefault + history.pushState (never a document load); handles popstate; single writer of `.nav-link` active state (is-active + aria-current), document.title, and the per-view meta description (values carried over from the old pages' heads, brand-resolved at write time). - Each folded page's JS becomes `export async function mount(root)` — root-scoped queries; `initSharedHeader()` dropped (the header boots once in the shell via the chat module; the admin flag comes from the same cached `fetchIsAdmin()` promise — zero extra requests). - app/main.py: a small list-driven route factory serves the shell for /tuning.html, /sources.html, /git-sources.html, /history.html — registered AFTER the API routers and BEFORE the static catch-all (routes-first). The phase-33 caching middleware applies no-cache + `?v=` rewriting unchanged; app/core/caching.py needed NO change (the view paths did not change — pinned by the integration tests). - The four old view .html files are DELETED (one source of truth); deep links to the old URLs keep working (the router picks the view from the pathname); `/?chat=<id>` is unaffected; the Containerfile bundles router.js (inlining the lazy view modules) and drops the folded page files. - app/schemas.py: HistoryTurn.text cap 4000 -> 32000 — the shell keeps long saved answers in the chat, and the old cap (stricter than the 24_000-char total history budget) 422-rejected any second turn in such a chat (found by the phase-42 E2E suite on the shell). Boundaries: login.html, shared.html, doc-edit.html, document.html REMAIN separate documents (flow pages, not navbar tabs); a mid-stream navigation to doc-edit/document.html still cancels per phase 48 (follow-up candidate, out of scope). The SSE API is unchanged. Real departures still cancel the turn — phase 48 intact (pinned by tests/e2e/test_stop_generation.py, unchanged, and by the new suite's real-departure control). Tests: - Phase-20 suite REWRITTEN to the new semantics (tests/e2e/test_sources_midstream_bug.py): a navbar switch no longer cancels — the stream survives the switch and the FULL answer settles; the pagehide partial persist REMAINS for real departures (the partial's exact shape — first streamed chunk prefix, no done metadata — is still pinned there). - NEW story suite tests/e2e/test_nav_switch_keeps_stream.py (mock LLM): the owner repro (send -> RAG mid-stream -> Chat: window sentinel survives = same document, FULL answer, exactly one brain turn in bor.chat.v1, exactly one settled query_log row, auto-saved row matches) + the same mid-stream switch against the other three views + the real-departure-still-cancels control + the no-switch baseline. - tests/unit/test_frontend_router.py: source-level pins of the router invariants (click interceptor targets ONLY same-shell view paths, pushState-only switches, mount-once guard, hidden+inert pair, single-writer active state/title); shell-route integration tests (each folded path serves the shell with no-cache + `?v=` body; a non-view path still 404s); the file-reading unit pins re-pointed at the shell (the four view files are gone — the shell is the source of truth). Verification (this commit): full suite green — 1565 unit+integration tests, app/ coverage 99% (>90% floor); ruff + pyright clean; the phase's E2E suites green in isolation (house protocol, AGENTS.md rule 9). Owner repro verified in a real browser against the real LLM (dev server :8010, headful Chromium): "tell me about everquest" -> RAG mid-stream -> Chat — the answer completed with one brain bubble and no error banner, `query_log` gained exactly one settled row (deflected=True: the dev KB holds no EverQuest docs — the settle, not the topic, is the proof), zero "chat: turn cancelled" lines for that turn; the control (real navigation to /shared.html mid-stream) still cancelled (no settled row, the cancel line logged, the partial persisted on return). Screenshots: .agents/screenshots/76_manual_*. Phase 76 (76_spa_nav_shell) complete — moved to .agents/phases/complete/.	2026-09-06 06:31:31 -04:00
ducoterra	7e567bddf3	prepping for SPA conversion	2026-09-05 21:50:56 -04:00
ducoterra	0e4651c779	feat(docs): save the whole chat session as a doc ... Phase 75 (TODO.md L4): "Save as doc" now drafts a document from the ENTIRE chat session — every question and answer up to the click, in order — instead of only the clicked bubble's answer; the existing doc-edit screen's free-form body editing is how the user edits out anything they don't want to keep from previous replies (no new UI surface). Task 01 (frontend): - app.js buildSessionTranscript(): walks the bor.chat.v1 conversation record in order — a numbered section per user turn ("## N. <question, raw>" + blank line + the raw answer text; more answers join under the same heading), sections blank-line separated, all trailing whitespace collapsed to one final newline. Only the raw persisted text travels (m.who + m.text — no thinking blocks, no source chips, no tune metadata); a brain record before the first user record is skipped; a heading-only section marks a user turn whose answer never landed (A6, owner-confirmed 2026-09-08). - saveAsDoc(btn): the draft body is buildSessionTranscript(); the dead single-bubble markdown parameter is dropped (the button's appendSaveAsDocButton signature is unchanged — one button per bubble). Title/path/double-click guard/hand-off are unchanged (defaultDocTitle: the last question, whitespace-collapsed, <=120 chars; docs/<slug>.md). - Unit: the app.js source pins move to the transcript shape (whole session, no thinking, no dead parameter). Task 02 (E2E): - tests/e2e/test_save_doc_session.py (bare-repo fixture, the phase-59 convention — git as source of truth): three DISTINCT on-topic turns in one session (turn 1 carries the phase-17 "think out loud" trigger so its record has a thinking block the transcript must exclude) -> save on the LAST bubble -> the prefilled body is ## 1./## 2./## 3. in order, byte-exact against the deterministic mock, thinking-free -> edit the whole section-2 block out of the body -> push -> git show bor-docs:<path> equals the EDITED body byte-for-byte (section 2's question and answer provably absent; sections 1 and 3 byte-exact; the UI's sha prefix is git rev-parse bor-docs). Second test: the button on the FIRST bubble still drafts the whole session (A6 — the transcript is the session at click time, title stays the last question); canceling leaves the branch tip untouched. - tests/e2e/test_response_to_docs.py: the phase-59 single-turn body expectation moves to the transcript shape ("## 1. <question>" + the answer's markdown) — the rest of the suite unchanged. Also lands the phase-74 file moves (00_phase.md / 03_mock_marker_e2e.md -> complete/) and the phase reports — the house convention of committing .agents/ with the phase.	2026-09-05 16:59:31 -04:00
ducoterra	055c0b5d85	feat(rag): pass chat history with prior thinking to the LLM ... Phase 74 (TODO.md L4): a follow-up question now reaches the model WITH the conversation so far — every prior user/brain turn and the prior thinking blocks on brain turns (preserve-thinking) — while POST /api/chat stays stateless (A10): the client provides the history in the request body and the server stores nothing new. Server (task 01): - ChatRequest.history: optional list[HistoryTurn] (who: user|brain, text, optional thinking) — absent/empty keeps the request byte-identical to pre-phase-74 (the two-message [system, user] request; the kill-switch semantics are pinned in the integration suite). - app.rag.prompts.history_to_messages: pure mapper — walks the turns newest-first against the settings budgets (history_max_turns=40 / history_max_chars=24000, BOR_HISTORY_MAX_TURNS / BOR_HISTORY_MAX_CHARS); a capped turn is dropped WHOLE (never cut mid-answer); the kept window is returned oldest-first; brain turns carry their thinking as reasoning_content (A4) only when non-empty. - Both branches feed it: the deflected path splices it between the system prompt and the current user message (the phase-71 recovery still rebuilds from messages[1:]), the grounded agent receives run_agent(..., history=hist); llm.py's message params widen to list[dict[str, Any]] (string-only messages stay byte-identical on the wire — the SDK passes message dicts through verbatim). - The per-turn log line (PLAN §9) gains history_msgs=N after kb_chars=N. - Pins: tests/unit/test_history.py (mapper: mapping, reasoning gating, both budgets, drop-whole, ordering, empty default), tests/unit/test_config.py (the two settings + env overrides), tests/unit/test_agent.py (the history splice + the default), tests/integration/test_chat_api.py (deflected AND grounded forward the history incl. reasoning_content, no-history byte-identity, 422 pins, the log field). Client (task 02): - runTurn — the single funnel for fresh send / phase-49 retry / phase-53 stale-regen — sends history = the conversation record minus the current question, with thinking only on brain records that streamed one (undefined drops the key from the JSON, the record's convention); the question is never duplicated into the history. Wire proof (task 03): - The mock's echo my history marker (HISTORY_TRIGGER) answers with the deterministic history echo — history: N prior messages; last answer tail: <last 24 chars>; thinking: yes|no — checked BEFORE the DEFLECT_MODE branch (like TABLE_TRIGGER), so it fires on both turn branches whatever the gate says; the module docstring records the user/assistant-only history invariant that keeps every existing (tool-result-classified) marker flow unaffected. - tests/e2e/test_llm_history.py (isolated): a grounded follow-up and a deflected follow-up both receive history: 2 prior messages + thinking: yes + the byte-exact tail of turn 1's answer (derived from the persisted bor.chat.v1 record — the same array the client maps into the body); a cold start receives history: 0 prior messages / last answer tail: none / thinking: no. - Regressions green in isolation: chat_rag, chat_history (phase 50), agent_document_tools, harness_aligned_tools, stop_generation, retry_answer, response_to_docs.	2026-09-05 16:04:40 -04:00
ducoterra	a16130c71d	fix(chat): keep generating while the tab is hidden ... Root cause (task 01): none of C1-C3 - in Chromium 151 (real mode) a merely-hidden tab neither stops the stream (frames arrive at full rate; turn completes) nor fires pagehide on tab switch; C1's double-record path was proven latent via a synthetic pagehide (trigger is browser-dependent, e.g. Safari) and C2 (the 120s pre-token guard) was confirmed to fire while hidden. - C1: the pagehide partial-persist is correlated with the turn's settle (leavePartialIndex) - the done/stop settle REPLACES it in place (identity-guarded rememberBrainTurn in-place mode), so bor.chat.v1 and the auto-saved saved_chats row keep exactly ONE brain turn per question; a real navigation never runs a settle, so the leave-save is unchanged. - C2: the visibility re-arm gives the still-armed pre-token guard a fresh TURN_TIMEOUT_MS when the tab returns to visible - hidden time no longer counts toward the 120s guard. - Phase-48 teardown contract untouched: Stop / tab close / real navigation still cancel the fetch and stop the model. - Unit pins: tests/unit/test_frontend_hidden_tab.py (the app.js mechanisms without a browser). - E2E pins: tests/e2e/test_hidden_tab_stream.py - synthetic pagehide mid-stream completes exactly once with one brain turn (localStorage + auto-saved row), reload restores one bubble, no-event baseline, and the fake-clock pre-token guard re-arm (discriminating: fails with the re-arm disabled).	2026-09-05 14:34:33 -04:00
ducoterra	45c3fa2863	chore(agent): phase roadmap from TODO.md (phases 73-75), clear the file ... Convert the two unchecked TODO items into executable phases (Protocol B, appended after the 72 completed phases): - 73_hidden_tab_stream (TODO L3): a merely-hidden browser tab must never stop a generating answer; repro/root-cause decision tree + the pagehide partial-correlation fix + the hidden-tab E2E pin. - 74_llm_chat_history (TODO L4, history): client-provided history in POST /api/chat (stateless, A10) mapped through both the deflected and grounded agent paths, prior thinking blocks preserved via reasoning_content, capped oldest-first; mock echo marker + E2E. - 75_save_doc_full_session (TODO L4, save-as-doc): the Save-as-doc draft body becomes the full session transcript; edit-out happens in the existing doc-edit body; multi-turn git-verified E2E. Owner-confirmed assumptions A1-A7 are recorded as ASSUMPTION lines in the task files. TODO.md is cleared (items now live in .agents/phases/todo/).	2026-09-05 12:14:21 -04:00
ducoterra	dbf2af26c6	refactor(agents): migrate .agent/ planning tree to .agents/ ... Standardize on the .agents/ directory (shared with project skills): phases/, user_stories/, reports/, screenshots/, validate.sh, and phase-sessions/ + pipeline.log all move to .agents/ (git mv preserves history; runtime artifacts move alongside). Updates every reference in AGENTS.md, README.md, .gitignore, app docstrings, and test story headers. Historical KB content in data/ and the runtime pipeline.log transcript are left untouched.	2026-09-05 10:57:07 -04:00
ducoterra	766702c750	finally getting accurate answers	2026-09-05 10:26:39 -04:00
ducoterra	bb2803bebd	feat(skills): add test-chat-model skill — add a chat model and run the controlled tool-calling battery ... Codifies the 2026-09-05 turbo comparison workflow as a project skill under .agents/skills/: switch BOR_LLM_CHAT_MODEL in .env, run the fixture gate (twice, for variance) + the locked derived gate with per-turn wall timing, interpret the two metrics against the reference model rates (re-read habit: lite ~100%, turbo ~12%; usage-floor MISS as test artifact; caps as real regression), record the verdicts byte-exact in TOOL_CALLING_TESTING.md, and commit the doc. Rules baked in: never touch the battery/thresholds/fixtures, never edit app code, never commit .env.	2026-09-05 00:13:21 -04:00
ducoterra	ce896ab8ab	docs(agent): record the turbo comparison on the controlled fixture battery ... turbo (2026-09-05, same fixture KB): fixture gate PASS 100%/100% on both metrics, two runs (wall 105-135s vs lite 43-55s); the redundant re-read of seeded documents that capped lite's executed ratio at 58-73% is model-specific (turbo re-read rate ~12% vs ~100% in-sample), corroborating section 7's framing. Locked derived battery: turbo fails only the >=6/10 tool-turn usage floor (it answers seeded read-target questions from context instead of making the refusable read call) - accuracy on all emitted calls still 100%/100%.	2026-09-05 00:09:55 -04:00
ducoterra	988ff78526	fix(agent): teach the document-identity contract on ls/read/grep refusals — end the post-harness tool-loop rambling ... Phase 72 (72_teaching_refusals) — completed under the 2026-09-04 controlled methodology (owner directive: stop clearing/re-importing the homelab KB per iteration; measure tool-calling accuracy on a controlled fixture KB, target >90%). Real-model gate verdicts (live, configured chat model 'lite', fixture KB): - Controlled fixture battery (the new methodology's pass condition — contract accuracy >= 90%): PASS, 4 consecutive runs: gate: lite PASS turns=10 answered=10 caps=0 tool-turns=10 calls 8/11 executed (73%) contract 11/11 (100%) 2026-09-04 (wall 43.4s) gate: lite PASS turns=10 answered=10 caps=0 tool-turns=10 calls 8/13 executed (62%) contract 12/13 (92%) 2026-09-04 (wall 50.6s) gate: lite PASS turns=10 answered=10 caps=0 tool-turns=10 calls 7/11 executed (64%) contract 11/11 (100%) 2026-09-04 (wall 46.8s) gate: lite PASS turns=10 answered=10 caps=0 tool-turns=10 calls 9/15 executed (60%) contract 14/15 (93%) 2026-09-04 (wall 54.8s) - Locked derived battery (phase-72 task 05, executed >= 90% bar, run unchanged on the same fixture KB): gate: lite FAIL turns=10 answered=10 caps=0 tool-turns=10 calls 5/15 executed (33%) contract 12/15 (80%) 2026-09-04 (wall 47.7s) The teaching works — every bare-path trap self-corrects in exactly one round, zero cap hits, zero repeat loops, 10/10 answered. The locked executed bar is blocked by ALREADY_IN_CONTEXT dedupe refusals on the corrected re-reads (the trap question seeds its target, so the correct combined-form read is refused for redundancy) — a copy-invariant model behavior (five copy variants, 0/15 re-reads flipped, 2026-09-03 -> 04) and an app-semantics decision for the owner (TOOL_CALLING_TESTING.md sections 5 and 7), not a copy lever. Copy changes this phase owns (unit pins updated to follow): - app/rag/agent.py: ls teaching refusals (path-like scope -> document-path line; unknown source -> no-source line with the source-name parenthetical), read/grep 'did you mean source/path?' teaching (find_path_candidates: exact or suffix path match, catalog order, cap 3), ALREADY_IN_CONTEXT naming the correct action (answer from the text already in the prompt), read tool description front-loaded with the do-not-read rule (the 2026-09-04 controlled telemetry: the re-read is the only remaining refusal class; contract accuracy 92-100% across runs) - app/rag/prompts.py: TOOLS_SECTION states the document-identity contract up front (ls path = source name; read/grep = combined source/path including the source name; do-not-read for <documents> documents placed next to the read teaching; one-call-per-reply and never-repeat rules) - tests: refusal pins (unit + integration), new dedicated E2E suite tests/e2e/test_tool_path_teaching.py (mock misuse flow, green in isolation), regression suites green in isolation (harness_aligned_tools, agent_document_tools, agent_unlimited_tools, search_tool, chat_rag). Gates: uv run pytest green (1501); coverage TOTAL 99% (>90%); ruff + pyright clean. Carries the still-uncommitted phase-71 todo/ -> complete/ move and both phases' .agent/reports/ (AGENTS.md 8).	2026-09-04 13:11:07 -04:00
ducoterra	7909bdb8da	test(agent): controlled fixture KB + one-command fast loop for tool-calling iterations ... The phase-72 iteration loop cleared the database, git-cloned the homelab repo, re-imported 38-51 documents and re-embedded per run — many minutes per iteration against a different KB every time (owner directive 2026-09-04: stop importing the homelab repo on every test run). Replace it with: - tests/fixtures/agent_kb/: 8 hand-written markdown docs (sources 'deployments'/'homelab') whose specifics (rack7, 10.77.42.0/24, VLAN 130, rbm-8842, 17 2 * * *, obsidian-bor:2026.7.14, 18765, 18443, ...) no model can guess; read targets carry non-topical filenames so their questions do not lexically seed them (the read must actually happen) - tests/fixtures/test_kb.dump.sql: data-only snapshot (TRUNCATE + INSERTs incl. embeddings, self-contained git_sources rows, static KB overview) — verified by round-trip checksum at build time - scripts/load_test_kb.py: one-off rebuild (real pipeline + embeddings, ~2s) that also prints the per-question retrieval report (all 10 battery questions must be grounded) - scripts/restore_test_kb.py: sub-second one-transaction restore (no git clone, no re-embedding) - scripts/agent_realmodel_check.py: the gate gains --restore / --mode fixture (curated 10-question battery with one unambiguously correct tool behavior per question) / --turns N (12s micro-loop) / --concurrency / per-turn + total wall timing, and a second accuracy metric (contract accuracy: well-formed calls targeting resolvable entities) alongside the phase-72 locked executed ratio — the re-read of a seeded doc is a copy-invariant model behavior (5 variants, 0/15 flipped) that the dedupe refusal counts as a failure - TOOL_CALLING_TESTING.md: the human-readable methodology (fast loop, design rules, metrics, copy levers + tried-and-reverted table, current standing, open design question) Measured: restore 0.03s; micro-loop ~12s; full loop ~43-55s; concurrency 2/3 gives no gain (endpoint serializes).	2026-09-04 13:10:15 -04:00
ducoterra	575d6c88d0	feat(agent): strip raw tool-scaffolding from streamed answers — deterministic filter with one bounded recovery	2026-09-03 13:39:15 -04:00
ducoterra	801639efcc	feat(agent): align the document tools with the harness-trained shape — ls, read(path), grep(pattern, path?)	2026-09-03 11:17:47 -04:00
ducoterra	16f1cfbcaf	add additional phases and launch.json	2026-09-02 18:59:09 -04:00
ducoterra	0bf96f22e1	fix(agent): make read_document robust to combined source/path arguments ... The model treated the combined 'source/path' string (as printed in search result lines, read-result headers and refusals) as the document's identity and passed it as 'source' — e.g. source='homelab/active/container_caddy/caddy.md' instead of source='homelab', path='active/container_caddy/caddy.md'. - Rewrite the read_document description with the split rule (source = before the FIRST '/', path = after it) and a worked example; share the source/path parameter descriptions between read_document and search_documents; map search result lines back onto the split. - New _resolve_document: on a lookup miss with a '/' in source, retry at the first slash (source names are directory basenames and can never contain '/'), plus a continuation candidate for a split at a later slash; a self-corrected combined form for an already-in-context document is still rejected as ALREADY_IN_CONTEXT. - A slash-carrying source that matches nothing gets an educational refusal naming the corrected arguments instead of the generic line that repeated the combined form. Verified live against aipi (lite) + the imported homelab KB: A/B on the exact failure scenario (5 runs each, right after a combined-source search result) — old descriptions 5/5 combined, new descriptions 5/5 clean; two live UI turns (Playwright) produced only clean split arguments, including a multi-hop read of install_caddy_deskwork.yaml that landed in done.sources. Full suite: 1376 passed, app coverage 99% (agent.py 100%), ruff + pyright clean, agent/search E2E green in isolation.	2026-09-02 17:42:57 -04:00
ducoterra	137d5fa1a5	feat(sources): removing a source deletes its files and index entries behind a confirmation modal	2026-09-02 15:55:33 -04:00
ducoterra	265e736b3d	add phase 68 complete	2026-09-02 13:33:45 -04:00
ducoterra	189aa92182	fix tool descriptions to prevent incorrect tool calls	2026-09-02 13:32:58 -04:00
ducoterra	8cf3a827ee	feat(agent): search_documents tool — the model can grep the indexed documents for an exact string	2026-09-02 12:04:34 -04:00
ducoterra	88293ed02f	feat(rag): retry a failed LLM request before the first token lands — BOR_LLM_RETRIES/BOR_LLM_RETRY_DELAY with a live 'retrying' status	2026-09-02 10:52:38 -04:00
ducoterra	f04ddbe1f8	fix(web): history tab copy — every chat saves automatically, there is no Save button ... meta description -> locked (A3) auto-save string (history.html L6). page-sub -> locked (A3) string, the <strong>Save</strong> emphasis retired with the button (L106-109). empty row -> locked (A3) string; colspan=6, hidden, and row id untouched (L163). h1, the anonymous gate section, and history.js are byte-identical — state language verified accurate.	2026-09-02 01:29:42 -04:00
ducoterra	8a1f99cb38	feat(web): move the chat action cluster to the pinned bottom and align the button sets ... - task 01: relocate the .chat-actions row (New chat + Share, comments byte-identical with a Phase 65 note) from the top of the column to the bottom of .chat-shell, directly above the composer - task 02 (owner-locked A1): wrap the row + #composer in ONE sticky .chat-bottom unit (position: sticky; bottom: env(safe-area-inset-bottom, 0), no z-index) — the pills stay at the bottom of the screen at every scroll position and settle into flow above the footer - task 03 (owner-locked A2): right-align the bottom row to the column's right edge (justify-content: flex-end), mirroring the right-aligned Save-as-doc corner; the five action pills share one 44px / 999px-pill geometry - task 04: dedicated Playwright suite tests/e2e/test_bottom_chat_actions.py (resting geometry, the A1 pin across the sticky range, A2 alignment + DOM order + mobile stack + 360px overflow bound + 44px touch targets, New chat / Share click-through) — green in isolation - task 05: regression matrix green in isolation (pinned_composer 4, save_share_ux 5, chat_persistence 4, share_chat 4, chat_history 5, smoke 3); full gate green — unit + integration pass, app/ coverage 99% (>90%), ruff + pyright clean	2026-09-02 01:08:18 -04:00
ducoterra	4677d86f49	feat(sources): real-time file progress for sync and upload — background upload with success toast	2026-09-01 23:51:43 -04:00
ducoterra	cddc84c7db	chore(agent): phase roadmap from TODO.md — 67_llm_retry + 68_search_tool	2026-09-01 20:15:08 -04:00