b85aab6eb0ec6f470c3b85d3541dfa1cb9ba20cb
8
Commits
| Author | SHA1 | Message | Date | |
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 amosblomqvist
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8355fbabdb |
delete the mappings ledger — per-job in-memory resolution + notes fingerprint guard
The persisted (chatId, sourceId)→node table was a shared namespace across independent chunk/batch jobs: each chunk's extractor mints local ids fresh (p1..pN), so later chunks collided with earlier ones — propositions silently skipped as 'already resolved' (coverage checkpointed anyway: permanent silent loss) and edges resolved onto the wrong nodes (the 'everything links to everything' mush). Owner ruling 2026-09-29: mergeFindings resolves THIS job's ids in memory, nothing persists between jobs; cross-job identity is the auditor's linkTo verdicts alone. - contracts: NodeMapping dies; NotesSource.contentFp — sha256 of the text at the last run, the re-import guard (unchanged re-import = TRUE no-op, no model calls, no usage; changed text re-runs; legacy unstamped sources re-run once) - merger: job-local resolution map, in-submit duplicate ids skip once, edges resolve extractor-local ids only - ports/store: appendMapping/readMappings, LEDGER_FILES.mappings, rewriteLedgers.mappings gone (stale data/graph/mappings.jsonl just stops being read) - session-clusters: birthSessionOf is provenance-only — the legacy mapping-line fallback for provenance-empty notes nodes dies - deletion: no mapping rows to strip; stats lose mappingsRemoved - replay-layout batches nodes by first provenance point - graph.test pins the new independence semantics (re-merge re-creates; duplicate ids within one submit resolve once); extraction tests pin per-chunk merges + the fingerprint guard |
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amosblomqvist
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d1b46132b9 |
Wave 7 close-out: the embedding ledger seam dies; notes birth via mapping lines
Part 1 — the ledger + remnants interlude (master-dispatched, owner ruling 2026-09-23: nothing configures the graph beyond chat models): - The embedding ledger surface is gone: readEmbeddings/writeEmbeddings ports, the EmbeddingsLedger contract, EMBEDDINGS_FILE (config, store impls, graphRevision source list), and graph-deletion's vector-pruning step. On-disk data files stay untouched (inert history). - The extraction embedder seam dies wholesale: ExtractionPipelineDeps drops the embedder dep (chat-handler + backfill/import-notes stubs go with it), the 'embedding' phase leaves ExtractionPhase, the usage capture/persist helpers die, and stages.embedding leaves ExtractionRunUsage (historical records keep their shape — reads are lenient). Extraction is two stages again, like the local-embedder era. - Consumer-less remnants: latestQuizOutcomes + QUIZ_EVENT_KINDS, clusterContentId, matchClusterLabelings + Community + ClusterLabeling, the readClusterLabels/appendClusterLabel port seams + store impls + LEDGER_FILES.clusterLabels. NamingRunUsage/readNamingRuns STAY (standing ruling — the cost pill renders historical naming spend); clusterHue + MIN_CLUSTER_SIZE stay (live). - The 'labeler' role dies: BACKGROUND_MODEL_ROLES, ROLE_SLOT, ModelRole, the catalog pin projections, and the UI roster strings. RolePins keys shrink with the union. The notes birth fallback (owner-approved 2026-09-23, surfaced by the interlude's live smoke: production notes imports create provenance-EMPTY nodes (importNotes passes messages: null — the file's anchor is the mapping line), so the provenance-only birth rule left every imported file unclustered and invisible to the prober's session list, against the locked file-birth ruling. A provenance-empty node now births under its FIRST mapping line's chatId (ledger order); only notes-born nodes ever hit the fallback (chat nodes always carry provenance; a re-encountered node's link-append re-opens the provenance rule). Deletion-safe: mapping lines of deleted chats are stripped alongside their provenance. Live-verified on port 3004: a fresh notes import clusters under its src_ id with the file path as the label, end to end with no embedder. 845/845 tests, typecheck/lint/build green. EOF ) |
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amosblomqvist
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c86430e8bf |
Wave 7 chunk B: remove the embeddings machinery — the ladder collapses
The owner's wave-7 ruling: embeddings die entirely (git history is the
stash); clustering is birth-session derived (chunk A, 950ddfd), labels
are session names, and the prober's graph tools replace injection.
- settings: GraphSettings collapses to { enabled } — embedding,
embeddingModel, clustering, labeling all die. Migration story: stale
record keys are UNREAD and dropped by the sanitizer's reconstruction;
the next graph-section PUT (replace-whole) persists the collapsed
shape. The settings-panel GraphSection renders one master row.
- deleted: src/server/embeddings.ts (adapters, resolveEmbeddingPortFor,
embedNewNodes, embeddingPort, embeddingModelCatalog), the
GET /api/models/embeddings route, scripts/embed-graph.ts, tests for
all three, and the /api/models/embeddings picker surfaces in the UI.
- prices: EMBEDDING_PRICES overlay + callCost fallback die. cost-summary:
the embedding stage fold dies — back to three stages (extraction/
audit/naming) per the owner ruling; historical stages.embedding spend
in old run records is simply not displayed.
- ports: EmbeddingPort/EmbeddingResult/EmbeddingTask die. The embeddings
LEDGER surface (readEmbeddings/writeEmbeddings + EmbeddingsLedger +
EMBEDDINGS_FILE + graph-deletion's vector pruning) STAYS — inert data,
kept only so graph-context.ts compiles until Teacher's pass removes
it; the seam dies in the follow-up interlude.
- chat-handler (approved cross-lane unwiring, wave-6 precedent): the
extraction pipeline's embedder becomes a documented no-op (nothing
embedded, nothing spent, ledger untouched) until Teacher's pass
removes the phase; the graph-context injection dispatch gate, the
graphContext deps wiring, the setContextRespawn seam, and
turn-service's triggerGraphContext are gone — injection is dead
code pending Teacher's file deletions.
- scripts: backfill-graph/import-notes pass the same no-op embedder;
replay-layout derives clusters from birthSessionPartition (the same
partition the real settle uses) instead of the embeddings ledger.
- settings-body: parseGraphSettingsBody reads the master switch only —
old-shape keys in a body are ignored, not rejected; bad shapes 400.
- next.config: the @huggingface tracing-exclusion guards die with the
last reference.
Cross-lane flags: extraction.ts/graph-context.ts keep stale embed
comments + the embed phase until Teacher's full pass (their parallel
interlude owns those files — zero overlap kept by design);
semantic-clusters.ts + its test stay one more round (extraction.test.ts,
Teacher's file, still imports it — they delete it with the namer cases);
ChatSettings.graphContextTokens + the graph-context-control UI stay
until Teacher+UI.
Gates: tsc clean, eslint clean, 885/885 tests, build compiles.
Live-verified on the port-3004 dev tree: PUT /api/settings/graph with
dead keys collapses on write, bad shapes 400, GET reads {enabled: true},
/api/models/embeddings 404s.
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amosblomqvist
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f5edc7f0a5 |
Semantic topic clusters: local embeddings replace Louvain
Louvain only ever found the reasoning chains (the graph is disconnected by nature — every connected component became its own cluster) and edge-orphans could never join anything. Clusters are now RELATED TOPICS: propositions grouped by meaning. - Embedder (src/server/embeddings.ts): in-process transformers.js v4 running EmbeddingGemma-300M q8 (MTEB 68.4, ~300MB one-time download), MRL-truncated to 512d, "title: none | text:" prefix on 100% of inputs, L2-normalized so cosine = dot. Model/dim mismatch voids the ledger (full re-embed). Injected at the composition root — the agent layer never imports the server layer (architecture law). - Ledger (data/graph/embeddings.json): model + dim + vectors + the persisted cluster partition. Reclustering runs at the END of every embedding batch (post-merge hook, both front doors) — never per read (the agglomerative pass is ~1.5s at 338 nodes). - Clustering (src/core/semantic-clusters.ts): hand-rolled average-linkage agglomerative over cosine (npm HDBSCAN is an abandoned alpha). Stragglers stay singletons by default; attachStragglers is the all-in toggle. Threshold 0.60 swept on the real graph: 26 topics, 74/90 edge-orphans land in real topics, 10 stragglers. - Consumers (snapshot, settle, namer, replay) read the persisted partition — one cluster concept everywhere; core-survival label matching unchanged (20/26 topics kept labels). - Louvain retired: detectCommunities + graphology* deps deleted (graphology-louvain had leaked into the client bundle since the clusters wave); scripts/bench-graph.ts (dead FA2 bench) removed. - scripts/embed-graph.ts: backfill/cold-start (338 nodes in 150s including the one-time model download). |
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amosblomqvist
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3a1c18b9de |
Inference-depth anchoring playground: vertical + radial modes
The graph's follows/supports edges encode derivation (premise -> conclusion); the layout can now express that rank spatially, as a session-only playground toggle (nothing promoted yet): - inferenceDepths: longest chain from a base node, CYCLE-SAFE by SCC condensation (Tarjan, iterative) — the DAG property is typical, not guaranteed; cycle members share their component's depth (mutual support = equal footing). O(V+E), pure, deterministic. - DepthAnchor force: per-node target scalar — vertical mode rows (baseline at the anchor centroid, arrows up), radial mode rings (foundations center, outer boundary = edge of knowledge). The rank is computed, not simulated: pairwise up-forces can't give baselines. - Mode projections: gravity x-only in vertical / dropped in radial; cluster pull x-only in vertical / tangential-only in radial; the anchor re-blend preserves user arrangement in the FREE dimension only (x / angle) — meaning owns the constrained axis, memory owns the free one. - setPhysicsTuning reheats (alpha 1): toggling a mode re-forms the graph live and commits the new rest state; drag release is springy along the constrained axis (node returns toward its level/ring). - Sweep on the real graph: strength 0.8 = 215/216 arrows correct with organic sag; 1.5 = crisp rows. 174 base nodes, max chain depth 7, zero cycles in current data. replay-layout --depth=<mode> bakes a mode into the ledger for rest-state experiments. |
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amosblomqvist
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975a78a304 |
Cluster gravity: per-cluster centroid pull force in the engine
The 'virtual node' realized as a centroid force: two allocation-free O(n) passes per tick (membership resolved once at sim creation; Float64Array sums). Measured indistinguishable from force-off at 338 nodes (271ms vs 272ms per 400-tick settle). - createGraphSimulation: SimOptions.clusterPull + linkStrength + velocityDecay (physics controls plumbing); degree-scaled link stiffness so linkStrength=1 is exactly d3's default - settleGraphLayout split into layout-settle.ts (it computes the Louvain partition for the pull); layout.ts stays browser-barrel-pure - barrel no longer re-exports clusters.ts: graphology + louvain are fully out of the client bundle (verified against built chunks) - replay passes the per-batch partition; CLUSTER_PULL_STRENGTH=0.15 tuned by sweep: cluster spread 63->36 world units, centroid separation and total span unchanged (no blob merge, no collapse) |
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amosblomqvist
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7eceb58303 |
Engine unification: d3-force replaces forceAtlas2 everywhere
One engine owns the equilibrium: the merge settle and (next commit) the live drag both run createGraphSimulation — d3-force link springs, 1/d charge, weak centroid gravity — so a drag's rest state IS the server's rest state. The FA2-era anchor mechanism survives as a post-tick POSITION-SPACE re-blend (retention 0.85): d3's forceLink is a Hooke spring (strength*(d-L)*alpha), which overpowers any force-space anchor at long range — the re-blend is alpha-independent and always wins as the sim anneals (the 675-unit drift bug). Gravity retuned for d3's 1/d many-body falloff (bootstrap 0.2 / incremental 0.12: cluster spacing lands ~400 world units, the FA2-era density). Rim orphans seed (and anchor) at 1.7x the CONNECTED core's mean radius — a max-span-based rim fed back on itself and ran the layout away to 6000 units. Replay: 338 positions in 1.6s, old-node shift within a batch 4.8 (FA2: 23). |
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amosblomqvist
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0c14ea425d |
Option A: incremental anchored force layout, persisted server-side
The layout now EVOLVES instead of reshuffling on every extraction. A pure
core module (src/core/layout.ts) warm-starts forceAtlas2 from the positions
ledger (data/graph/positions.json, read-modify-write like sources.json,
updatedAt stamp for future live-physics conflict handling), re-blends every
previously-positioned node toward its anchor each iteration (retention 0.85
- old placements stay recognizable, strong forces still win), seeds new
nodes near their positioned neighbors, and seeds orphans on the rim outside
the core so they read as unconnected knowledge.
- Port/store: GraphStore.readPositions/writePositions; snapshot carries
positions when the ledger exists (optional - fresh graphs unchanged).
- Extraction pipeline settles synchronously after every merge (chat and
notes paths), before usage persist - the next /api/graph fetch already
reflects new nodes.
- View: the ledger IS the layout; the local one-shot FA2 pass survives
only as a fallback when no ledger exists.
- scripts/replay-layout.ts: simulates organic growth by replaying the
current 338-node graph one imported file at a time (real import order,
edges activate when both endpoints exist). Real run: 338 positions in
0.3s, 90-degree-0 orphans collecting at mean r=338 vs connected r=194.
- Also restores the cluster region fills (hull background colors) that
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