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).

alembic/versions/0018_folder_summary_manual_flag.py

@@ -0,0 +1,56 @@
+"""folder_summaries.manually_edited: owner-edited descriptions (phase 97, task 01)
+
+Revision ID: 0018
+Revises: 0017
+Create Date: 2026-09-11
+
+Phase 97 (the RAG view shows the catalog as the drill-down tree the
+agent sees, with editable folder descriptions): the owner can edit —
+or clear — any directory's description, just like a file's summary
+(phase 57's affordance). The owner's words are OWNER CONTENT: the
+sync-time generator must never silently rewrite them. This migration
+adds the one flag that makes that enforceable — a single additive,
+fully reversible column (A13), no other schema change:
+
+* ``folder_summaries.manually_edited`` — BOOLEAN NOT NULL, server
+  default ``false``: ``true`` only while the row's description was
+  written by the owner (``PATCH /api/folders/summary`` — phase 97,
+  task 03 — the ONLY writer; the generator never sets it). The
+  generator's two rules for a manual row (``app.rag.folder_summaries``):
+  SKIPPED on regeneration (no ``lite`` burn on owner text — counted
+  ``kept_manual`` in the stats) and NEVER pruned (owner content
+  persists until the owner clears it — even a manual row for a folder
+  that dropped below 2 documents). Pre-0018 rows backfill ``false``:
+  an AI-written row stays an AI row. Clearing the description DELETES
+  the row — the next KB-changing sync regenerates an AI description
+  (the reset path; no separate regenerate button in v1).
+"""
+from __future__ import annotations
+
+import sqlalchemy as sa
+
+from alembic import op
+
+revision = "0018"
+down_revision = "0017"
+branch_labels = None
+depends_on = None
+
+
+def upgrade() -> None:
+    op.add_column(
+        "folder_summaries",
+        sa.Column(
+            "manually_edited",
+            sa.Boolean(),
+            server_default=sa.text("false"),
+            nullable=False,
+        ),
+    )
+
+
+def downgrade() -> None:
+    # The column is the only 0018 artefact — dropping it (the rows and
+    # their summaries survive) leaves 0017's schema byte-identical
+    # (A13, fully reversible).
+    op.drop_column("folder_summaries", "manually_edited")