nlm-memory 0.9.1 → 0.10.0

package/dist/ui/assets/index-D5lKaksH.css

@@ -0,0 +1 @@
+:root{--surface-0:#161616;--surface-1:#1d1d1d;--surface-2:#242424;--surface-float:#2c2c2c;--bg-1:var(--surface-float);--bg-2:var(--surface-2);--border-1:#262626;--border-2:#303030;--border-3:#3d3d3d;--border-4:#525252;--text-1:#e8e8e8;--text-2:#b0b0b0;--text-3:#686868;--text-4:#383838;--accent:#e8ff6e;--accent-dim:#e8ff6e1f;--accent-glow:#e8ff6e0f;--warn:#f93;--warn-dim:#ff99331f;--danger:#ff6b35;--danger-dim:#ff6b3512;--danger-glow:#ff6b351f;--font-mono:"IBM Plex Mono", "Fira Code", ui-monospace, monospace;--text-xs:10px;--text-sm:11px;--text-base:13px;--text-md:15px;--text-lg:18px;--text-xl:22px;--text-stat:36px;--lh-tight:1.3;--lh-base:1.5;--lh-loose:1.7;--page-x:28px;--section-gap:24px;--r-sm:3px;--r-md:5px;--r-lg:7px;--ease-fast:.1s ease;--ease:.15s ease;--ease-slow:.3s 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auto;gap:4px 10px;padding:10px 12px;display:grid}.palette-pick .palette-context-id{grid-column:2/3}.palette-undo{border:1px solid var(--border-1);color:var(--text-3);cursor:pointer;font-size:var(--text-xs);background:0 0;border-radius:4px;grid-area:1/3/span 2;align-self:center;padding:4px 8px}.palette-undo:hover:not(:disabled){color:var(--text-1);border-color:var(--border-2)}.palette-error{color:#f0a0a0;font-size:var(--text-sm);background:#dc50501f;border:1px solid #dc505059;border-radius:4px;padding:8px 10px}.palette-foot{border-top:1px solid var(--border-1);justify-content:space-between;align-items:center;gap:12px;padding:10px 16px;display:flex}.palette-hint{font-family:var(--font-mono)}.palette-confirm{background:var(--accent);color:var(--bg-1);cursor:pointer;font-family:var(--font-mono);font-size:var(--text-sm);border:none;border-radius:4px;padding:8px 14px}.palette-confirm:disabled{opacity:.4;cursor:not-allowed}.card-head.card-head-stack{flex-direction:column;align-items:stretch;gap:8px;padding:10px 14px 12px}.card-head-row{justify-content:space-between;align-items:baseline;display:flex}.card-filters{flex-wrap:wrap;gap:12px;display:flex}.filter-group{gap:4px;display:flex}.filter-group .chip{font-size:var(--text-xs);padding:2px 8px}.thread-sessions-head{align-items:center;gap:12px;margin:24px 0 8px;display:flex}.thread-sessions-title{flex-shrink:0;margin:0}.thread-sessions-head .search-input{flex:1}.thread-filters{flex-wrap:wrap;align-items:center;gap:12px;margin-bottom:8px;display:flex}.thread-filters .filter-group{flex-wrap:wrap}.pagination{border-top:1px solid var(--border-1);flex-wrap:wrap;align-items:center;gap:16px;margin-top:4px;padding:14px 0 4px;display:flex}.page-size{align-items:center;gap:8px;display:flex}.page-nav{align-items:center;gap:4px;display:flex}.page-nav .chip:disabled{opacity:.4;cursor:not-allowed}.page-indicator{font-size:var(--text-sm);color:var(--text-2);text-align:center;min-width:60px;padding:0 8px}.marker-row-promotable{grid-template-columns:auto 1fr auto auto;align-items:baseline;gap:10px;display:grid}.marker-row-promotable .marker-actions{align-items:baseline;gap:6px;display:flex}.promote-chip{font-size:var(--text-xs);color:var(--accent);background:var(--accent-glow);border-color:#e8ff6e4d;padding:2px 8px}.promote-chip:hover{color:var(--accent);background:var(--accent-dim);border-color:#e8ff6e8c}.promote-editor{align-items:center;gap:6px;min-width:280px;display:flex}.promote-input{flex:1;min-width:200px}.pagination.pagination-compact{font-size:var(--text-xs);flex-wrap:wrap;gap:10px;padding:10px 0 4px}.pagination.pagination-compact .page-indicator{min-width:40px;font-size:var(--text-xs);padding:0 4px}.pagination.pagination-compact .chip{font-size:var(--text-xs);padding:1px 6px}.pagination.pagination-compact .form-label{font-size:9px}.river-date-cell--month-start{border-left:1px solid var(--border-2);padding-left:3px}.river-legend{align-items:center;gap:3px;display:flex}.river-legend-cell{background:var(--surface-2);border-radius:2px;width:12px;height:12px}.river-legend-cell.tier-1{background:#e8ff6e33}.river-legend-cell.tier-2{background:#e8ff6e66}.river-legend-cell.tier-3{background:#e8ff6ea6}.river-legend-cell.tier-4{background:var(--accent)}.empty-row{color:var(--text-2);font-size:var(--text-sm);padding:16px 14px}.list-action-row{padding:8px 14px}.toast-host{z-index:var(--z-toast);pointer-events:none;flex-direction:column;gap:8px;max-width:min(420px,100vw - 48px);display:flex;position:fixed;bottom:24px;right:24px}.toast{background:var(--surface-float);border:1px solid var(--border-3);border-left:3px solid var(--text-2);border-radius:var(--r-md);font-size:var(--text-sm);color:var(--text-1);pointer-events:auto;align-items:flex-start;gap:8px;padding:10px 12px;animation:.2s ease-out fadeSlideIn;display:flex;box-shadow:0 12px 32px #00000073}.toast-success{border-left-color:var(--accent)}.toast-error{border-left-color:var(--danger)}.toast-info{border-left-color:var(--text-2)}.toast-message{line-height:var(--lh-base);flex:1}.toast-close{color:var(--text-3);cursor:pointer;font-size:var(--text-lg);background:0 0;border:0;margin-top:-2px;padding:0 2px;line-height:1}.toast-close:hover{color:var(--text-1)}.tooltip-anchor{display:inline-flex;position:relative}.tooltip{background:var(--surface-float);color:var(--text-1);border:1px solid var(--border-3);border-radius:var(--r-sm);font-size:var(--text-xs);font-family:var(--font-mono);letter-spacing:.04em;text-align:center;pointer-events:none;opacity:0;width:max-content;max-width:240px;transition:opacity var(--ease-fast), transform var(--ease-fast);z-index:var(--z-tooltip);padding:4px 8px;position:absolute;left:50%;transform:translate(-50%)translateY(-4px)}.tooltip-top .tooltip{margin-bottom:4px;bottom:100%}.tooltip-bottom .tooltip{margin-top:4px;top:100%}.tooltip-anchor:hover .tooltip,.tooltip-anchor:focus-within .tooltip{opacity:1;transform:translate(-50%)translateY(0)}.confirm-dialog{background:var(--surface-float);border:1px solid var(--border-3);border-radius:var(--r-md);width:min(440px,92vw);z-index:var(--z-palette);padding:20px 22px 16px;animation:.2s ease-out fadeSlideIn;position:fixed;top:22vh;left:50%;transform:translate(-50%);box-shadow:0 24px 60px #0000008c}.confirm-title{font-family:var(--font-mono);font-size:var(--text-base);color:var(--text-1);letter-spacing:.04em;margin:0 0 8px}.confirm-message{color:var(--text-2);font-size:var(--text-sm);line-height:var(--lh-base);margin:0 0 16px}.confirm-actions{justify-content:flex-end;gap:8px;display:flex}.session-meta{-webkit-line-clamp:2;line-clamp:2;white-space:normal;-webkit-box-orient:vertical;display:-webkit-box;overflow:hidden}.search-wrap{align-items:center;display:flex;position:relative}.search-wrap .search-input{width:100%;padding-right:28px}.search-clear{color:var(--text-3);cursor:pointer;background:0 0;border:none;align-items:center;padding:0;display:flex;position:absolute;right:6px}.search-clear:hover{color:var(--text-1)}.drawer-nav{flex-shrink:0;align-items:center;gap:4px;display:flex}.drawer-nav-btn{border:1px solid var(--border-2);color:var(--text-3);cursor:pointer;border-radius:var(--r-sm);transition:color var(--ease), border-color var(--ease), background var(--ease);background:0 0;justify-content:center;align-items:center;padding:3px;display:flex}.drawer-nav-btn:hover:not(:disabled){color:var(--text-1);border-color:var(--border-3);background:var(--surface-2)}.drawer-nav-btn:disabled{opacity:.35;cursor:not-allowed}.dot-pulse{animation:2s ease-in-out infinite dot-pulse}@keyframes dot-pulse{0%,to{opacity:1;transform:scale(1)}50%{opacity:.6;transform:scale(1.35)}}.search-hint{margin:8px 0 12px}.search-header{z-index:var(--z-sticky);background:var(--surface-0);border-bottom:1px solid var(--border-1);margin-bottom:16px;padding-bottom:12px;position:sticky;top:0}.session-row.is-selected{background:var(--surface-2);border-left:2px solid var(--accent);padding-left:12px}.live-tag[data-kind=summary]{background:var(--surface-2);color:var(--text-2)}.live-tag[data-kind=label]{background:var(--surface-2);color:var(--text-1)}.live-tag[data-kind=entity]{background:var(--accent-glow);color:var(--accent);border-color:#e8ff6e40}.match-snippet{color:var(--text-2);font-size:var(--text-xs);line-height:var(--lh-base);-webkit-line-clamp:2;-webkit-box-orient:vertical;margin-top:4px;display:-webkit-box;overflow:hidden}.match-snippet mark{color:var(--accent);background:#e8ff6e26;border-radius:2px;padding:0 2px}

package/dist/ui/index.html

@@ -4,8 +4,8 @@
     <meta charset="UTF-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
     <title>nlm memory</title>
-    <script type="module" crossorigin src="/ui/assets/index-BTj60bAH.js"></script>
-    <link rel="stylesheet" crossorigin href="/ui/assets/index-Baw2qIKc.css">
+    <script type="module" crossorigin src="/ui/assets/index-CJgVgxlM.js"></script>
+    <link rel="stylesheet" crossorigin href="/ui/assets/index-D5lKaksH.css">
   </head>
   <body>
     <div id="root"></div>

package/migrations/000_initial_schema.sql

@@ -0,0 +1,174 @@
+-- NLE Memory canonical store — SQLite schema
+-- Default zero-config backend. Postgres mirror lives in schema/postgres.sql (TBD).
+--
+-- Design principles:
+--   • Sessions are immutable once written — supersedence is via edges, never via UPDATE
+--   • Entity registry is mutable (canonical merges, retitles, retirements)
+--   • All timestamps are ISO 8601 strings in TEXT columns (SQLite lacks a native datetime type;
+--     ISO strings sort correctly and are dialect-portable to Postgres)
+--   • Foreign keys enforced; ON DELETE CASCADE only on edges, never on sessions
+
+PRAGMA foreign_keys = ON;
+PRAGMA journal_mode = WAL;
+
+-- ── Sessions ───────────────────────────────────────────────────────────────
+CREATE TABLE IF NOT EXISTS sessions (
+  id                  TEXT PRIMARY KEY,           -- e.g. sess_2026-05-07T14-32-CAMEL
+  runtime             TEXT NOT NULL,              -- e.g. claude-code/1.0, hermes/0.5
+  runtime_session_id  TEXT,                       -- the runtime's own session identifier
+  started_at          TEXT NOT NULL,              -- ISO 8601
+  ended_at            TEXT,                       -- ISO 8601; NULL while session is active
+  duration_min        INTEGER,                    -- computed; null while active
+  label               TEXT NOT NULL,              -- human-readable session title
+  summary             TEXT NOT NULL,              -- ~80-token classifier output
+  body                TEXT,                       -- full markdown body with inline markers
+  status              TEXT NOT NULL CHECK(status IN ('active','closed','superseded')),
+  transcript_kind     TEXT,                       -- e.g. claude-code-jsonl
+  transcript_path     TEXT,                       -- runtime-resolvable opaque pointer
+  transcript_offset   INTEGER,                    -- byte offset start
+  transcript_length   INTEGER,                    -- byte length
+  created_at          TEXT NOT NULL DEFAULT (datetime('now')),
+  updated_at          TEXT NOT NULL DEFAULT (datetime('now'))
+);
+
+CREATE INDEX IF NOT EXISTS idx_sessions_started_at ON sessions(started_at DESC);
+CREATE INDEX IF NOT EXISTS idx_sessions_status ON sessions(status);
+CREATE INDEX IF NOT EXISTS idx_sessions_runtime ON sessions(runtime);
+
+-- ── Entities ───────────────────────────────────────────────────────────────
+CREATE TABLE IF NOT EXISTS entities (
+  canonical           TEXT PRIMARY KEY,           -- preferred spelling — also the primary key
+  type                TEXT NOT NULL,              -- 'candidate' until labeled. Built-in labels: project | tool | contact | service | concept. Custom labels are user-defined via the UI / `nle-daemon action label` and have no CHECK constraint.
+  status              TEXT NOT NULL CHECK(status IN ('active','dormant','retired','rejected','candidate')),
+  source              TEXT,                       -- e.g. 'property:.claude/properties/polysignal.yaml', 'auto-detected', 'user-registered'
+  notes               TEXT,                       -- freeform user notes
+  first_seen_session  TEXT REFERENCES sessions(id),
+  last_seen_session   TEXT REFERENCES sessions(id),
+  session_count       INTEGER NOT NULL DEFAULT 0,
+  created_at          TEXT NOT NULL DEFAULT (datetime('now')),
+  updated_at          TEXT NOT NULL DEFAULT (datetime('now'))
+);
+
+CREATE INDEX IF NOT EXISTS idx_entities_type ON entities(type);
+CREATE INDEX IF NOT EXISTS idx_entities_status ON entities(status);
+
+-- ── Entity variants (case-insensitive normalization) ───────────────────────
+CREATE TABLE IF NOT EXISTS entity_variants (
+  variant             TEXT PRIMARY KEY,           -- raw form as it appeared
+  canonical           TEXT NOT NULL REFERENCES entities(canonical) ON DELETE CASCADE,
+  source_session_id   TEXT REFERENCES sessions(id)
+);
+
+CREATE INDEX IF NOT EXISTS idx_entity_variants_canonical ON entity_variants(canonical);
+
+-- ── Session ↔ Entity (many-to-many) ───────────────────────────────────────
+CREATE TABLE IF NOT EXISTS session_entities (
+  session_id          TEXT NOT NULL REFERENCES sessions(id) ON DELETE CASCADE,
+  entity_canonical    TEXT NOT NULL REFERENCES entities(canonical),
+  PRIMARY KEY (session_id, entity_canonical)
+);
+
+CREATE INDEX IF NOT EXISTS idx_session_entities_entity ON session_entities(entity_canonical);
+
+-- ── Markers (decisions / open questions) ──────────────────────────────────
+-- Extracted from inline body markers. Body is canonical — these rows are a queryable cache.
+CREATE TABLE IF NOT EXISTS markers (
+  id                  INTEGER PRIMARY KEY AUTOINCREMENT,
+  session_id          TEXT NOT NULL REFERENCES sessions(id) ON DELETE CASCADE,
+  kind                TEXT NOT NULL CHECK(kind IN ('decision','open')),
+  text                TEXT NOT NULL,
+  position            INTEGER NOT NULL DEFAULT 0  -- ordering within session
+);
+
+CREATE INDEX IF NOT EXISTS idx_markers_session ON markers(session_id);
+CREATE INDEX IF NOT EXISTS idx_markers_kind ON markers(kind);
+
+-- ── Supersedence + continues edges ────────────────────────────────────────
+-- Edge table for non-destructive editing. A session can supersede or continue another.
+-- Bidirectional lookups handled by indexes on both columns.
+CREATE TABLE IF NOT EXISTS session_edges (
+  from_session        TEXT NOT NULL REFERENCES sessions(id) ON DELETE CASCADE,
+  to_session          TEXT NOT NULL REFERENCES sessions(id) ON DELETE CASCADE,
+  kind                TEXT NOT NULL CHECK(kind IN ('supersedes','continues','branched_from','merged_from')),
+  PRIMARY KEY (from_session, to_session, kind)
+);
+
+CREATE INDEX IF NOT EXISTS idx_session_edges_from ON session_edges(from_session);
+CREATE INDEX IF NOT EXISTS idx_session_edges_to ON session_edges(to_session);
+CREATE INDEX IF NOT EXISTS idx_session_edges_kind ON session_edges(kind);
+
+-- ── Full-text search over sessions ────────────────────────────────────────
+-- FTS5 virtual table for label/summary/body search. Maintained via triggers.
+CREATE VIRTUAL TABLE IF NOT EXISTS sessions_fts USING fts5(
+  label, summary, body,
+  content='sessions',
+  content_rowid='rowid'
+);
+
+CREATE TRIGGER IF NOT EXISTS sessions_ai AFTER INSERT ON sessions BEGIN
+  INSERT INTO sessions_fts(rowid, label, summary, body)
+  VALUES (new.rowid, new.label, new.summary, new.body);
+END;
+
+CREATE TRIGGER IF NOT EXISTS sessions_au AFTER UPDATE ON sessions BEGIN
+  INSERT INTO sessions_fts(sessions_fts, rowid, label, summary, body)
+  VALUES('delete', old.rowid, old.label, old.summary, old.body);
+  INSERT INTO sessions_fts(rowid, label, summary, body)
+  VALUES (new.rowid, new.label, new.summary, new.body);
+END;
+
+CREATE TRIGGER IF NOT EXISTS sessions_ad AFTER DELETE ON sessions BEGIN
+  INSERT INTO sessions_fts(sessions_fts, rowid, label, summary, body)
+  VALUES('delete', old.rowid, old.label, old.summary, old.body);
+END;
+
+-- ── Vector embeddings (sqlite-vec) ────────────────────────────────────────
+-- Loaded as an extension at runtime: SELECT load_extension('vec0');
+-- Schema declared here for reference; real CREATE happens at daemon startup
+-- after the extension is loaded.
+--
+-- CREATE VIRTUAL TABLE session_embeddings USING vec0(
+--   session_id TEXT PRIMARY KEY,
+--   embedding float[768]      -- nomic-embed-text dim; configurable
+-- );
+
+-- ── Schema migrations tracker ─────────────────────────────────────────────
+-- Applied by SQLiteStore.migrate() on daemon start. Tracks which versioned
+-- migration files in daemon/migrations/ have been run on this database.
+CREATE TABLE IF NOT EXISTS schema_migrations (
+  version     INTEGER PRIMARY KEY,
+  name        TEXT NOT NULL,
+  applied_at  TEXT NOT NULL DEFAULT (datetime('now'))
+);
+
+-- ── Adapter state (per-runtime offsets for resumability) ──────────────────
+CREATE TABLE IF NOT EXISTS adapter_state (
+  adapter_name        TEXT NOT NULL,              -- e.g. 'claude-code'
+  source_path         TEXT NOT NULL,              -- e.g. ~/.claude/projects/foo/abc123.jsonl
+  last_offset         INTEGER NOT NULL DEFAULT 0,
+  last_processed_at   TEXT NOT NULL DEFAULT (datetime('now')),
+  PRIMARY KEY (adapter_name, source_path)
+);
+
+-- ── Actions (event-sourced action log) ────────────────────────────────────
+-- Universal primitive for every interactive change: alert dismiss/snooze, entity
+-- retire, link supersedes/continues, mark intentional, undo, etc. Append-only.
+-- Computed tables (session_edges, entities.status) become projections of this log.
+-- Same schema across web UI, MCP tool calls, CLI, future mobile/api.
+CREATE TABLE IF NOT EXISTS actions (
+  id                  TEXT PRIMARY KEY,           -- act_<iso-ts>_<short-uuid>
+  timestamp           TEXT NOT NULL,              -- ISO 8601 — when the action was taken
+  kind                TEXT NOT NULL,              -- dismiss | snooze | retire_entity | label_entity | merge_entity | link_supersedes | link_continues | resolve_open | mark_intentional | undo | sync_localstorage
+  subject_type        TEXT NOT NULL,              -- alert | entity | session | decision | open_question | action
+  subject_id          TEXT NOT NULL,              -- e.g. 'stale_Squarespace', 'sess_002', 'NocoDB'
+  payload             TEXT,                       -- JSON: action-specific data (snoozed_until, target_session_id, new_type, ...)
+  actor               TEXT NOT NULL DEFAULT 'user', -- user | agent:claude-code | agent:hermes | system
+  runtime             TEXT,                       -- web-ui | mcp:claude-code | cli | mobile-ios | api
+  reverted_by         TEXT REFERENCES actions(id), -- the action that undid this one (null = active)
+  created_at          TEXT NOT NULL DEFAULT (datetime('now'))
+);
+
+CREATE INDEX IF NOT EXISTS idx_actions_subject ON actions(subject_type, subject_id);
+CREATE INDEX IF NOT EXISTS idx_actions_kind ON actions(kind);
+CREATE INDEX IF NOT EXISTS idx_actions_timestamp ON actions(timestamp DESC);
+CREATE INDEX IF NOT EXISTS idx_actions_active ON actions(subject_type, subject_id, reverted_by) WHERE reverted_by IS NULL;

package/migrations/001_entity_type_rename.sql

@@ -0,0 +1,17 @@
+-- Migration 001: rename entity types and action kind
+--
+-- Renames entity.type values: property→project, person→contact, external→service
+-- (The CHECK constraint on entities.type was already dropped in the initial schema.)
+-- Safe to re-run: CASE expression only matches old values; INSERT OR IGNORE is a no-op
+-- if this migration has already been applied.
+
+UPDATE entities
+SET type = CASE
+  WHEN type = 'property' THEN 'project'
+  WHEN type = 'person'   THEN 'contact'
+  WHEN type = 'external' THEN 'service'
+  ELSE type
+END
+WHERE type IN ('property', 'person', 'external');
+
+INSERT OR IGNORE INTO schema_migrations (version, name) VALUES (1, 'entity_type_rename');

package/migrations/002_adapter_state_extend.sql

@@ -0,0 +1,12 @@
+-- Migration 002: extend adapter_state with columns needed for supersede-on-resume.
+--
+-- file_size — bytes-on-disk at last classification (detects file growth)
+-- session_id — NLE session id produced by the last classification (target for supersede)
+--
+-- last_offset stays for future chunking use (Phase 3+). For supersede-on-resume in
+-- Phase 2, file_size carries the equivalent signal at whole-file granularity.
+
+ALTER TABLE adapter_state ADD COLUMN file_size INTEGER;
+ALTER TABLE adapter_state ADD COLUMN session_id TEXT;
+
+INSERT OR IGNORE INTO schema_migrations (version, name) VALUES (2, '002_adapter_state_extend');

package/migrations/003_session_embeddings.sql

@@ -0,0 +1,11 @@
+-- Migration 003: session_embeddings virtual table via sqlite-vec.
+--
+-- Requires sqlite-vec loaded at connection time (handled by SQLiteStore.connect()).
+-- 768 dims matches nomic-embed-text, the default embedding model.
+
+CREATE VIRTUAL TABLE IF NOT EXISTS session_embeddings USING vec0(
+  session_id TEXT PRIMARY KEY,
+  embedding  float[768]
+);
+
+INSERT OR IGNORE INTO schema_migrations (version, name) VALUES (3, '003_session_embeddings');

package/migrations/004_facts.sql

@@ -0,0 +1,46 @@
+-- Migration 004: facts + fact_embeddings.
+--
+-- Facts are the agent-recall projection of session content: normalized
+-- (subject, predicate, value) triples derived from session classifier output,
+-- supersedence-aware via the tombstone pointer `superseded_by`. See
+-- docs/plans/factstore-design.md.
+--
+-- Phase B.1 creates the tables. Writes start in Phase B.2 (classifier prompt
+-- extension). The fact_embeddings vec0 table is created now so Phase B.3 can
+-- light up semantic fact recall without a second migration.
+
+CREATE TABLE IF NOT EXISTS facts (
+  id                 TEXT PRIMARY KEY,
+  kind               TEXT NOT NULL CHECK (kind IN ('decision', 'open', 'attribute')),
+  subject            TEXT NOT NULL,
+  predicate          TEXT NOT NULL,
+  value              TEXT NOT NULL,
+  source_session_id  TEXT NOT NULL REFERENCES sessions(id) ON DELETE CASCADE,
+  source_quote       TEXT,
+  created_at         TEXT NOT NULL DEFAULT (datetime('now')),
+  superseded_by      TEXT REFERENCES facts(id) ON DELETE SET NULL,
+  confidence         REAL NOT NULL CHECK (confidence >= 0.0 AND confidence <= 1.0)
+);
+
+-- Hot path: deterministic supersedence collision check on ingest
+-- (subject, predicate) lookups against current rows only.
+CREATE INDEX IF NOT EXISTS idx_facts_subject_predicate_current
+  ON facts(subject, predicate)
+  WHERE superseded_by IS NULL;
+
+-- "What do we know about X?" — subject-only browsing.
+CREATE INDEX IF NOT EXISTS idx_facts_subject_current
+  ON facts(subject)
+  WHERE superseded_by IS NULL;
+
+-- Reverse lookup: which facts came from this session?
+CREATE INDEX IF NOT EXISTS idx_facts_session
+  ON facts(source_session_id);
+
+-- Semantic recall index (Phase B.3). 768 dims matches nomic-embed-text.
+CREATE VIRTUAL TABLE IF NOT EXISTS fact_embeddings USING vec0(
+  fact_id    TEXT PRIMARY KEY,
+  embedding  float[768]
+);
+
+INSERT OR IGNORE INTO schema_migrations (version, name) VALUES (4, '004_facts');

package/migrations/005_sources.sql

@@ -0,0 +1,31 @@
+-- Migration 005: sources registry.
+--
+-- Each row represents one transcript source the daemon should scan. The
+-- three hardcoded adapters (claude-code / hermes / pi) become seeded rows
+-- pointing at the same parse logic; future custom JSONL or webhook sources
+-- live alongside them.
+--
+-- Parse config is a JSON blob whose shape depends on `kind`:
+--   - "claude-code" / "hermes" / "pi": preset adapters. parse_config is
+--     reserved but unused — paths come from path_or_url.
+--   - "jsonl-generic": { sessionIdField, textField, startedAtField,
+--     roleField, runtimeLabel, ... }
+--   - "webhook": parse_config is empty; ingest is push-based.
+--
+-- See docs/plans/desktop-product.md (Phase 0).
+
+CREATE TABLE IF NOT EXISTS sources (
+  id            INTEGER PRIMARY KEY AUTOINCREMENT,
+  kind          TEXT    NOT NULL CHECK (kind IN ('claude-code', 'hermes', 'pi', 'jsonl-generic', 'webhook')),
+  name          TEXT    NOT NULL UNIQUE,
+  path_or_url   TEXT,
+  runtime_label TEXT    NOT NULL,
+  parse_config  TEXT    NOT NULL DEFAULT '{}',
+  enabled       INTEGER NOT NULL DEFAULT 1,
+  created_at    TEXT    NOT NULL DEFAULT (datetime('now')),
+  updated_at    TEXT    NOT NULL DEFAULT (datetime('now'))
+);
+
+CREATE INDEX IF NOT EXISTS idx_sources_enabled ON sources(enabled) WHERE enabled = 1;
+
+INSERT OR IGNORE INTO schema_migrations (version, name) VALUES (5, '005_sources');

package/migrations/006_providers.sql

@@ -0,0 +1,33 @@
+-- Migration 006: providers registry.
+--
+-- Each row represents one LLM endpoint configured for classification or
+-- (future) embedding. The classifier reads this table to choose a
+-- provider/model at boot; the UI mutates it through /api/providers.
+--
+-- API key storage. v0 stores keys in the api_key column. This is fine
+-- because the SQLite file already contains the user's transcripts —
+-- anyone with disk access already has everything sensitive. Phase 2
+-- (Tauri shell) migrates keys to the OS keychain and replaces the column
+-- with a keychain reference. The API shape stays the same.
+--
+-- `kind` is the structural family (openai-compatible, ollama,
+-- anthropic-native, deepseek). The classifier+model UI uses it to decide
+-- which client class to instantiate.
+--
+-- See docs/plans/desktop-product.md (Phase 0 task 3).
+
+CREATE TABLE IF NOT EXISTS providers (
+  id            INTEGER PRIMARY KEY AUTOINCREMENT,
+  kind          TEXT    NOT NULL CHECK (kind IN ('deepseek', 'ollama', 'openai', 'anthropic', 'openrouter', 'openai-compatible')),
+  name          TEXT    NOT NULL UNIQUE,
+  base_url      TEXT,
+  api_key       TEXT,
+  default_model TEXT,
+  enabled       INTEGER NOT NULL DEFAULT 1,
+  created_at    TEXT    NOT NULL DEFAULT (datetime('now')),
+  updated_at    TEXT    NOT NULL DEFAULT (datetime('now'))
+);
+
+CREATE INDEX IF NOT EXISTS idx_providers_enabled ON providers(enabled) WHERE enabled = 1;
+
+INSERT OR IGNORE INTO schema_migrations (version, name) VALUES (6, '006_providers');

package/migrations/007_source_tokens.sql

@@ -0,0 +1,17 @@
+-- Migration 007: webhook token on sources.
+--
+-- Webhook sources need a bearer token so external tools (anything that
+-- pushes sessions via POST /api/ingest) can authenticate. The token is
+-- stored alongside the source row so one webhook = one token = one
+-- provenance label.
+--
+-- Storage policy mirrors providers.api_key: column in the canonical
+-- SQLite for v0 (the DB file already holds the user's transcripts,
+-- adding a token doesn't change the threat model). Phase 2 migrates to
+-- OS keychain without changing the API shape.
+--
+-- See docs/plans/desktop-product.md (Phase 0 task 5).
+
+ALTER TABLE sources ADD COLUMN token TEXT;
+
+INSERT OR IGNORE INTO schema_migrations (version, name) VALUES (7, '007_source_tokens');

package/migrations/008_fts_rebuild.sql

@@ -0,0 +1,9 @@
+-- One-time safety rebuild of the sessions_fts external-content FTS5 index.
+-- The virtual table and its sync triggers (sessions_ai / sessions_au /
+-- sessions_ad) were declared in migration 000 and have fired on every write
+-- since, so the index is normally already in sync. This rebuild guarantees
+-- the index matches every existing sessions row before the recall path
+-- starts depending on FTS5 for keyword search. Safe and idempotent.
+INSERT INTO sessions_fts(sessions_fts) VALUES('rebuild');
+
+INSERT OR IGNORE INTO schema_migrations (version, name) VALUES (8, 'fts_rebuild');

package/migrations/009_session_embedding_chunks.sql

@@ -0,0 +1,46 @@
+-- Migration 009: chunk + max-pool semantic index.
+--
+-- Replaces session_embeddings (one vector per session, truncated at
+-- MAX_EMBED_CHARS=8000) with per-chunk vectors. Recall-time score is
+-- max cosine across chunks per session.
+--
+-- The 2026-05-25 LongMemEval-S baseline showed 98% of gold sessions
+-- exceed 8000 chars and were silently truncated. Raising the per-call
+-- cap (#172) hit Ollama 500s on >50% of long inputs. Chunking sidesteps
+-- both: each chunk is well under the Ollama failure cliff, and the full
+-- body becomes searchable. Expected lift: semantic R@5 87.2 → >92,
+-- hybrid R@5 94.6 → >96.
+--
+-- Schema choices:
+--   * Auxiliary columns (+session_id, +chunk_idx) so KNN queries return
+--     session attribution without a join.
+--   * Separate session_chunk_map keyed on session_id supports
+--     `DELETE FROM session_embedding_chunks WHERE chunk_id IN
+--     (SELECT chunk_id FROM session_chunk_map WHERE session_id = ?)`
+--     since vec0 has no documented filtering on aux columns.
+--
+-- session_embeddings (single-vector) is intentionally left in place:
+--   * keeps rollback trivial (revert recall code, old vectors still there)
+--   * avoids forcing a multi-hour re-embed at deploy time; backfill
+--     populates chunks asynchronously
+--   * a future cleanup migration drops it once chunks are validated
+
+CREATE VIRTUAL TABLE IF NOT EXISTS session_embedding_chunks USING vec0(
+  chunk_id   INTEGER PRIMARY KEY,
+  embedding  float[768],
+  +session_id TEXT,
+  +chunk_idx  INTEGER
+);
+
+CREATE TABLE IF NOT EXISTS session_chunk_map (
+  chunk_id   INTEGER PRIMARY KEY,
+  session_id TEXT NOT NULL,
+  chunk_idx  INTEGER NOT NULL,
+  FOREIGN KEY (session_id) REFERENCES sessions(id) ON DELETE CASCADE
+);
+
+CREATE INDEX IF NOT EXISTS idx_session_chunk_map_session
+  ON session_chunk_map(session_id);
+
+INSERT OR IGNORE INTO schema_migrations (version, name)
+  VALUES (9, '009_session_embedding_chunks');

package/migrations/010_sources_opencode.sql

@@ -0,0 +1,30 @@
+-- Migration 010: add 'opencode' to the sources.kind CHECK constraint.
+--
+-- SQLite does not support ALTER COLUMN to modify CHECK constraints in place.
+-- Standard approach: rename → recreate → copy → drop old.
+
+PRAGMA foreign_keys = OFF;
+
+CREATE TABLE sources_new (
+  id            INTEGER PRIMARY KEY AUTOINCREMENT,
+  kind          TEXT    NOT NULL CHECK (kind IN ('claude-code', 'hermes', 'opencode', 'pi', 'jsonl-generic', 'webhook')),
+  name          TEXT    NOT NULL UNIQUE,
+  path_or_url   TEXT,
+  runtime_label TEXT    NOT NULL,
+  parse_config  TEXT    NOT NULL DEFAULT '{}',
+  enabled       INTEGER NOT NULL DEFAULT 1,
+  token         TEXT,
+  created_at    TEXT    NOT NULL DEFAULT (datetime('now')),
+  updated_at    TEXT    NOT NULL DEFAULT (datetime('now'))
+);
+
+INSERT INTO sources_new SELECT id, kind, name, path_or_url, runtime_label, parse_config, enabled, token, created_at, updated_at FROM sources;
+
+DROP TABLE sources;
+ALTER TABLE sources_new RENAME TO sources;
+
+CREATE INDEX IF NOT EXISTS idx_sources_enabled ON sources(enabled) WHERE enabled = 1;
+
+PRAGMA foreign_keys = ON;
+
+INSERT OR IGNORE INTO schema_migrations (version, name) VALUES (10, '010_sources_opencode');

package/migrations/011_sources_hermes_agent.sql

@@ -0,0 +1,30 @@
+-- Migration 011: add 'hermes-agent' to the sources.kind CHECK constraint.
+--
+-- SQLite does not support ALTER COLUMN to modify CHECK constraints in place.
+-- Standard approach: rename → recreate → copy → drop old.
+
+PRAGMA foreign_keys = OFF;
+
+CREATE TABLE sources_new (
+  id            INTEGER PRIMARY KEY AUTOINCREMENT,
+  kind          TEXT    NOT NULL CHECK (kind IN ('claude-code', 'hermes', 'hermes-agent', 'opencode', 'pi', 'jsonl-generic', 'webhook')),
+  name          TEXT    NOT NULL UNIQUE,
+  path_or_url   TEXT,
+  runtime_label TEXT    NOT NULL,
+  parse_config  TEXT    NOT NULL DEFAULT '{}',
+  enabled       INTEGER NOT NULL DEFAULT 1,
+  token         TEXT,
+  created_at    TEXT    NOT NULL DEFAULT (datetime('now')),
+  updated_at    TEXT    NOT NULL DEFAULT (datetime('now'))
+);
+
+INSERT INTO sources_new SELECT id, kind, name, path_or_url, runtime_label, parse_config, enabled, token, created_at, updated_at FROM sources;
+
+DROP TABLE sources;
+ALTER TABLE sources_new RENAME TO sources;
+
+CREATE INDEX IF NOT EXISTS idx_sources_enabled ON sources(enabled) WHERE enabled = 1;
+
+PRAGMA foreign_keys = ON;
+
+INSERT OR IGNORE INTO schema_migrations (version, name) VALUES (11, '011_sources_hermes_agent');

package/migrations/012_sources_aider.sql

@@ -0,0 +1,30 @@
+-- Migration 012: add 'aider' to the sources.kind CHECK constraint.
+--
+-- SQLite does not support ALTER COLUMN to modify CHECK constraints in place.
+-- Standard approach: rename → recreate → copy → drop old.
+
+PRAGMA foreign_keys = OFF;
+
+CREATE TABLE sources_new (
+  id            INTEGER PRIMARY KEY AUTOINCREMENT,
+  kind          TEXT    NOT NULL CHECK (kind IN ('claude-code', 'hermes', 'hermes-agent', 'aider', 'opencode', 'pi', 'jsonl-generic', 'webhook')),
+  name          TEXT    NOT NULL UNIQUE,
+  path_or_url   TEXT,
+  runtime_label TEXT    NOT NULL,
+  parse_config  TEXT    NOT NULL DEFAULT '{}',
+  enabled       INTEGER NOT NULL DEFAULT 1,
+  token         TEXT,
+  created_at    TEXT    NOT NULL DEFAULT (datetime('now')),
+  updated_at    TEXT    NOT NULL DEFAULT (datetime('now'))
+);
+
+INSERT INTO sources_new SELECT id, kind, name, path_or_url, runtime_label, parse_config, enabled, token, created_at, updated_at FROM sources;
+
+DROP TABLE sources;
+ALTER TABLE sources_new RENAME TO sources;
+
+CREATE INDEX IF NOT EXISTS idx_sources_enabled ON sources(enabled) WHERE enabled = 1;
+
+PRAGMA foreign_keys = ON;
+
+INSERT OR IGNORE INTO schema_migrations (version, name) VALUES (12, '012_sources_aider');

package/migrations/013_adapter_state_failure_count.sql

@@ -0,0 +1,12 @@
+-- Migration 013: add failure_count to adapter_state.
+--
+-- Tracks consecutive classify/storage failures per source file. The scheduler
+-- skips files whose failure_count has reached the backoff ceiling (default 3)
+-- and whose file_size has not changed since the last attempt. When the file
+-- grows (new content appended), failure_count resets to 0 and the file is
+-- retried. This prevents a single permanently-broken or over-large transcript
+-- from flooding daemon-err.log on every 30-minute tick.
+
+ALTER TABLE adapter_state ADD COLUMN failure_count INTEGER NOT NULL DEFAULT 0;
+
+INSERT OR IGNORE INTO schema_migrations (version, name) VALUES (13, '013_adapter_state_failure_count');