@jafreck/lore 0.3.3 → 0.3.5

package/README.md

@@ -64,6 +64,7 @@ flowchart LR
         METRICS[lore_metrics]
         COVERAGE[lore_coverage]
         WRITEBACK[lore_writeback]
+        ANALYZE[lore_analyze]
     end
 
     subgraph MCP_CLIENTS[MCP Clients — Agents]
@@ -84,10 +85,10 @@ flowchart LR
     RESOLVE -.->|optional| EMBED
     EMBED -.-> DB
 
-    DB --- LOOKUP & SEARCH & DOCS_TOOL & ANNOT & GRAPH & ROUTES & NOTES & ARCH & TESTMAP & SNIPPET & BLAME & HISTORY & METRICS & COVERAGE & WRITEBACK
+    DB --- LOOKUP & SEARCH & DOCS_TOOL & ANNOT & GRAPH & ROUTES & NOTES & ARCH & TESTMAP & SNIPPET & BLAME & HISTORY & METRICS & COVERAGE & WRITEBACK & ANALYZE
     EMBED <-.->|semantic/fused| SEARCH
 
-    LOOKUP & SEARCH & DOCS_TOOL & ANNOT & GRAPH & ROUTES & NOTES & ARCH & TESTMAP & SNIPPET & BLAME & HISTORY & METRICS & COVERAGE & WRITEBACK <--> MCP_CLIENTS
+    LOOKUP & SEARCH & DOCS_TOOL & ANNOT & GRAPH & ROUTES & NOTES & ARCH & TESTMAP & SNIPPET & BLAME & HISTORY & METRICS & COVERAGE & WRITEBACK & ANALYZE <--> MCP_CLIENTS
 ```
 
 Lore sits between your codebase and any LLM-powered tool. A `LoreRuntime`
@@ -196,6 +197,7 @@ await builder.build();
 | `lore_metrics` | Aggregate index metrics plus coverage/staleness fields |
 | `lore_coverage` | Symbol-level coverage, uncovered lines, and staleness metadata |
 | `lore_writeback` | Persist agent-authored symbol summaries |
+| `lore_analyze` | Run graph analysis primitives: symbol-level cycle detection (SCC), connected components (file or symbol scope), bounded-size symbol clustering, and condensed codebase summary |
 
 ### lore_lookup query options
 
@@ -378,15 +380,22 @@ npx @jafreck/lore ingest-coverage --db ./lore.db --root ./my-project \
 
 ### Embeddings
 
-Lore optionally generates dense vector embeddings for semantic search using a
-sentence-transformers model. The embedding model is downloaded and managed
-automatically — specify it with `--embedding-model`:
+Lore optionally generates dense vector embeddings for semantic search using
+`@huggingface/transformers` (Transformers.js), which runs ONNX models natively
+in Node.js — no Python or external processes required. The default model is
+`Qwen/Qwen3-Embedding-0.6B` (1024-dim); override with `--embedding-model`:
 
 ```bash
 npx @jafreck/lore index --root ./my-project --db ./lore.db \
-  --embedding-model 'Qwen/Qwen3-Embedding-4B'
+  --embedding-model 'nomic-ai/nomic-embed-text-v1.5'
 ```
 
+Hardware acceleration is automatic: CoreML on Apple Silicon, WebGPU when
+available, CPU elsewhere. Override via the `LORE_EMBED_DEVICE` env var.
+Quantized ONNX dtype (fp32/fp16/q8/q4) is configurable with `LORE_EMBED_DTYPE`.
+In update/watch/poll mode, symbols and docs whose embedding text is unchanged
+(SHA-256 hash comparison) are skipped entirely for fast incremental re-embeds.
+
 At query time, `lore_search` in `semantic` or `fused` mode embeds the query
 and performs cosine similarity against stored vectors. If the model cannot
 initialize, search gracefully degrades to structural BM25.
@@ -542,6 +551,14 @@ Start the MCP server over stdio.
 npx @jafreck/lore mcp --db <path> [--blocking-embedder]
 ```
 
+### lore analyze
+
+Run graph analysis on an indexed knowledge base.
+
+```bash
+npx @jafreck/lore analyze --db <path> [--mode <cycles|components|clusters|summary>] [--edge-kinds <call|type|both>] [--branch <name>] [--max-lines <n>]
+```
+
 ## Build from source
 
 ```bash

package/dist/cli.js

@@ -33,6 +33,8 @@ function usage() {
                          Install git hooks for automatic refresh on commit/merge/checkout
   lore ingest-coverage --db <path> --root <dir> --file <path> --format <lcov|cobertura> [--commit <sha>]
                          Ingest an explicit coverage report file into the knowledge base
+  lore analyze --db <path> [--mode <mode>] [--edge-kinds <kind>] [--branch <name>] [--max-lines <n>]
+                         Run graph analysis on the knowledge-base (cycles, components, clusters, summary)
 
 Options:
   --root <dir>             Root directory to index (required for index, refresh)
@@ -510,6 +512,60 @@ async function main() {
         const builder = new IndexBuilder(dbPath, { rootDir });
         await builder.ingestCoverage(reportPath, format, commitSha);
     }
+    else if (subcommand === 'analyze') {
+        const dbPath = flag(args, '--db');
+        if (!dbPath) {
+            console.error('Error: --db <path> is required for the analyze subcommand.\n');
+            usage();
+            return;
+        }
+        const mode = flag(args, '--mode') ?? 'summary';
+        const validModes = ['cycles', 'components', 'clusters', 'summary'];
+        if (!validModes.includes(mode)) {
+            console.error(`Error: --mode must be one of: ${validModes.join(', ')}\n`);
+            usage();
+            return;
+        }
+        const edgeKindsRaw = flag(args, '--edge-kinds') ?? 'both';
+        const validEdgeKinds = ['call', 'type', 'both'];
+        if (!validEdgeKinds.includes(edgeKindsRaw)) {
+            console.error(`Error: --edge-kinds must be one of: ${validEdgeKinds.join(', ')}\n`);
+            usage();
+            return;
+        }
+        const edgeKinds = edgeKindsRaw;
+        const branch = flag(args, '--branch');
+        const maxLinesRaw = flag(args, '--max-lines');
+        let maxLines;
+        if (maxLinesRaw !== undefined) {
+            const parsed = Number(maxLinesRaw);
+            if (!Number.isFinite(parsed) || parsed <= 0) {
+                console.error('Error: --max-lines must be a positive number.\n');
+                usage();
+                return;
+            }
+            maxLines = Math.floor(parsed);
+        }
+        const { openReadOnly } = await import('./lore-server/db.js');
+        const { detectSymbolCycles, findConnectedComponents, clusterSymbols, buildCodebaseSummary, } = await import('./indexer/graph-analysis.js');
+        const db = openReadOnly(dbPath);
+        const opts = { edgeKinds, branch };
+        let result;
+        if (mode === 'cycles') {
+            result = detectSymbolCycles(db, opts);
+        }
+        else if (mode === 'components') {
+            result = findConnectedComponents(db, { ...opts, scope: 'symbol' });
+        }
+        else if (mode === 'clusters') {
+            result = clusterSymbols(db, { ...opts, maxLinesPerCluster: maxLines });
+        }
+        else {
+            result = buildCodebaseSummary(db, { ...opts, maxLinesPerModule: maxLines });
+        }
+        db.close();
+        console.log(JSON.stringify(result, null, 2));
+    }
     else {
         console.error(`Unknown subcommand: ${subcommand}\n`);
         usage();

package/dist/cli.js.map

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package/dist/index.d.ts

@@ -13,15 +13,16 @@ export { IndexBuilder } from './indexer/index.js';
 export { openDb, setLoreMeta, getLoreMeta, createVec0Tables } from './indexer/db.js';
 export type { Database } from './indexer/db.js';
 export { resolveSymbolEdges, topoSort, detectCycles } from './indexer/call-graph.js';
+export { detectSymbolCycles, findConnectedComponents, clusterSymbols, buildCodebaseSummary, } from './indexer/graph-analysis.js';
+export type { EdgeKind, GraphAnalysisOptions, ConnectedComponentsOptions, ClusterOptions, SymbolCluster, CodebaseSummaryOptions, CodebaseSummary, ModuleSummary, } from './indexer/graph-analysis.js';
 export { walkFiles, detectLanguageForPath } from './indexer/walker.js';
 export type { WalkerConfig, FileEntry } from './indexer/walker.js';
 export { ImportResolver } from './indexer/resolver.js';
-export { ensurePythonDeps } from './indexer/ensure-python-deps.js';
 export { installGitHooks } from './indexer/git-hooks.js';
 export type { InstallGitHooksOptions } from './indexer/git-hooks.js';
 export type { EffectiveLspSettings, LspSettingsOverrides } from './indexer/lsp/config.js';
-export { SentenceTransformersProvider, Qwen3EmbeddingProvider, DEFAULT_EMBEDDING_MODEL } from './indexer/embedder.js';
-export type { EmbeddingProvider } from './indexer/embedder.js';
+export { TransformersJsProvider, LazyEmbeddingProvider, DEFAULT_EMBEDDING_MODEL, tokenAwareBatch, hashEmbeddingText } from './indexer/embedder.js';
+export type { EmbeddingProvider, OnnxDtype } from './indexer/embedder.js';
 export type { ExtractionResult, RawCallRef, RawImport, RawSymbol, SymbolExtractor, } from './indexer/extractors/types.js';
 export { RESOLUTION_METHODS, RESOLVED_METHODS, UNRESOLVED_METHODS } from './indexer/resolution-method.js';
 export type { ResolutionMethod } from './indexer/resolution-method.js';
@@ -39,8 +40,8 @@ export type { LoreServerOptions } from './lore-server/server.js';
 export type { SearchObservation, SearchObserver } from './lore-server/tools/search.js';
 export { registerTools } from './lore-server/tool-registry.js';
 export type { ToolModule, ToolDefinition } from './lore-server/tool-registry.js';
-export { openReadOnly, getSymbolById, getSymbolsByName, listSymbols, getFileById, getFileByPath, listFiles, listResolvedEdges, } from './lore-server/db.js';
-export type { SymbolRow, FileRow, ResolvedEdge, ListResolvedEdgesOptions } from './lore-server/db.js';
+export { openReadOnly, getSymbolById, getSymbolsByName, listSymbols, getFileById, getFileByPath, listFiles, listResolvedEdges, listTypeRefs, listSymbolRelationships, } from './lore-server/db.js';
+export type { SymbolRow, FileRow, ResolvedEdge, ListResolvedEdgesOptions, TypeRefEdge, ListTypeRefsOptions, SymbolRelationshipEdge, ListSymbolRelationshipsOptions, } from './lore-server/db.js';
 export { LoreLogger, LogLevel, LOG_LEVEL_NAMES, initLogger, getLogger, resetLogger } from './logger.js';
 export type { LoreLoggerOptions, LogEntry, ToolCallFields, StartupFields } from './logger.js';
 export { trackProcess, untrackProcess, killAllTracked, trackedCount } from './process-tracker.js';

package/dist/index.d.ts.map

@@ -1 +1 @@
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package/dist/index.js

@@ -13,11 +13,11 @@
 export { IndexBuilder } from './indexer/index.js';
 export { openDb, setLoreMeta, getLoreMeta, createVec0Tables } from './indexer/db.js';
 export { resolveSymbolEdges, topoSort, detectCycles } from './indexer/call-graph.js';
+export { detectSymbolCycles, findConnectedComponents, clusterSymbols, buildCodebaseSummary, } from './indexer/graph-analysis.js';
 export { walkFiles, detectLanguageForPath } from './indexer/walker.js';
 export { ImportResolver } from './indexer/resolver.js';
-export { ensurePythonDeps } from './indexer/ensure-python-deps.js';
 export { installGitHooks } from './indexer/git-hooks.js';
-export { SentenceTransformersProvider, Qwen3EmbeddingProvider, DEFAULT_EMBEDDING_MODEL } from './indexer/embedder.js';
+export { TransformersJsProvider, LazyEmbeddingProvider, DEFAULT_EMBEDDING_MODEL, tokenAwareBatch, hashEmbeddingText } from './indexer/embedder.js';
 // ── Resolution method taxonomy (shared constant) ─────────────────────────────
 export { RESOLUTION_METHODS, RESOLVED_METHODS, UNRESOLVED_METHODS } from './indexer/resolution-method.js';
 // ── Pipeline (composable indexing stages) ─────────────────────────────────────
@@ -31,7 +31,7 @@ export { FilePoller } from './indexer/poller.js';
 // ── MCP server ────────────────────────────────────────────────────────────────
 export { createLoreMcpServer, createLoreMcpServerAsync } from './lore-server/server.js';
 export { registerTools } from './lore-server/tool-registry.js';
-export { openReadOnly, getSymbolById, getSymbolsByName, listSymbols, getFileById, getFileByPath, listFiles, listResolvedEdges, } from './lore-server/db.js';
+export { openReadOnly, getSymbolById, getSymbolsByName, listSymbols, getFileById, getFileByPath, listFiles, listResolvedEdges, listTypeRefs, listSymbolRelationships, } from './lore-server/db.js';
 // ── Logging ───────────────────────────────────────────────────────────────────
 export { LoreLogger, LogLevel, LOG_LEVEL_NAMES, initLogger, getLogger, resetLogger } from './logger.js';
 // ── Process lifecycle ─────────────────────────────────────────────────────────

package/dist/index.js.map

@@ -1 +1 @@
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+{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;GAUG;AAEH,iFAAiF;AACjF,OAAO,EAAE,YAAY,EAAE,MAAM,oBAAoB,CAAC;AAClD,OAAO,EAAE,MAAM,EAAE,WAAW,EAAE,WAAW,EAAE,gBAAgB,EAAE,MAAM,iBAAiB,CAAC;AAErF,OAAO,EAAE,kBAAkB,EAAE,QAAQ,EAAE,YAAY,EAAE,MAAM,yBAAyB,CAAC;AACrF,OAAO,EACL,kBAAkB,EAClB,uBAAuB,EACvB,cAAc,EACd,oBAAoB,GACrB,MAAM,6BAA6B,CAAC;AAWrC,OAAO,EAAE,SAAS,EAAE,qBAAqB,EAAE,MAAM,qBAAqB,CAAC;AAEvE,OAAO,EAAE,cAAc,EAAE,MAAM,uBAAuB,CAAC;AAEvD,OAAO,EAAE,eAAe,EAAE,MAAM,wBAAwB,CAAC;AAGzD,OAAO,EAAE,sBAAsB,EAAE,qBAAqB,EAAE,uBAAuB,EAAE,eAAe,EAAE,iBAAiB,EAAE,MAAM,uBAAuB,CAAC;AAUnJ,gFAAgF;AAChF,OAAO,EAAE,kBAAkB,EAAE,gBAAgB,EAAE,kBAAkB,EAAE,MAAM,gCAAgC,CAAC;AAG1G,iFAAiF;AACjF,OAAO,EAAE,aAAa,EAAE,MAAM,uBAAuB,CAAC;AAEtD,OAAO,EACL,gBAAgB,EAChB,cAAc,EACd,qBAAqB,EACrB,kBAAkB,EAClB,kBAAkB,EAClB,cAAc,GACf,MAAM,2BAA2B,CAAC;AAGnC,iFAAiF;AACjF,OAAO,EAAE,WAAW,EAAE,MAAM,cAAc,CAAC;AAG3C,iFAAiF;AACjF,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAC;AAEnD,OAAO,EAAE,UAAU,EAAE,MAAM,qBAAqB,CAAC;AAGjD,iFAAiF;AACjF,OAAO,EAAE,mBAAmB,EAAE,wBAAwB,EAAE,MAAM,yBAAyB,CAAC;AAGxF,OAAO,EAAE,aAAa,EAAE,MAAM,gCAAgC,CAAC;AAE/D,OAAO,EACL,YAAY,EACZ,aAAa,EACb,gBAAgB,EAChB,WAAW,EACX,WAAW,EACX,aAAa,EACb,SAAS,EACT,iBAAiB,EACjB,YAAY,EACZ,uBAAuB,GACxB,MAAM,qBAAqB,CAAC;AAY7B,iFAAiF;AACjF,OAAO,EAAE,UAAU,EAAE,QAAQ,EAAE,eAAe,EAAE,UAAU,EAAE,SAAS,EAAE,WAAW,EAAE,MAAM,aAAa,CAAC;AAGxG,iFAAiF;AACjF,OAAO,EAAE,YAAY,EAAE,cAAc,EAAE,cAAc,EAAE,YAAY,EAAE,MAAM,sBAAsB,CAAC"}

package/dist/indexer/embedder.d.ts

@@ -2,12 +2,12 @@
  * @module indexer/embedder
  *
  * Provides an `EmbeddingProvider` abstraction for generating dense vector
- * embeddings from text. The primary implementation (`SentenceTransformersProvider`)
- * delegates to a Python subprocess that runs a sentence-transformers model,
- * communicating over stdin/stdout using newline-delimited JSON (NDJSON).
+ * embeddings from text. The primary implementation (`TransformersJsProvider`)
+ * uses the `@huggingface/transformers` library to run ONNX models natively
+ * in Node.js — no Python or external processes required.
  *
- * The model's embedding dimensionality is auto-detected at startup — the
- * Python script writes a `{"dims": N}` line before entering the request loop.
+ * The model's embedding dimensionality is auto-detected at startup by
+ * embedding a probe sentence and inspecting the output shape.
  */
 export interface EmbeddingProvider {
     /** Embed a batch of texts; returns one float vector per input. */
@@ -20,11 +20,11 @@ export interface EmbeddingProvider {
      */
     readonly dims: number;
     /**
-     * Spawn the Python subprocess, load the model, and detect dim size.
+     * Load the model and detect dimensionality.
      * Must be called (and awaited) before the first `embed()` call.
      */
     init(): Promise<void>;
-    /** Release the underlying process / resources. */
+    /** Release the underlying resources. */
     dispose(): Promise<void>;
 }
 export interface StructuralEmbeddingInput {
@@ -34,44 +34,81 @@ export interface StructuralEmbeddingInput {
     resolvedReturnType?: string | null;
 }
 export declare function buildStructuralEmbeddingText(input: StructuralEmbeddingInput): string;
+/** SHA-256 hex hash of an embedding input text (used for skip-unchanged logic). */
+export declare function hashEmbeddingText(text: string): string;
 /**
- * Communicates with a Python subprocess via stdin/stdout NDJSON to produce
- * embeddings using a sentence-transformers compatible model.
+ * Split `items` into token-budget-aware batches.
  *
- * Call `init()` first to spawn the process and detect the model's embedding
- * dimensionality.  The subprocess is kept alive for the lifetime of the
- * provider for efficiency.
+ * Each batch stays within `MAX_BATCH_TOKENS` total estimated tokens and
+ * `MAX_BATCH_ITEMS` items.  An individual item that exceeds the token
+ * budget gets its own single-item batch.
  */
-export declare class SentenceTransformersProvider implements EmbeddingProvider {
+export declare function tokenAwareBatch<T>(items: T[], getText: (item: T) => string): T[][];
+/** ONNX quantization level for model loading. */
+export type OnnxDtype = 'fp32' | 'fp16' | 'q8' | 'q4';
+/**
+ * Generates embeddings using `@huggingface/transformers` (Transformers.js).
+ * Runs ONNX models natively in Node — zero Python dependency.
+ *
+ * Auto-detects the best available ONNX execution provider:
+ *   - `webgpu` when available (Linux/Windows with GPU)
+ *   - `coreml` on Apple Silicon (macOS arm64)
+ *   - `cpu` everywhere else (always available)
+ *
+ * Override via `LORE_EMBED_DEVICE` env var (e.g. `cpu`, `coreml`, `webgpu`).
+ * Override quantization via `LORE_EMBED_DTYPE` env var (e.g. `q8`, `q4`, `fp16`).
+ *
+ * Call `init()` first to download/load the model and detect its embedding
+ * dimensionality. The model is kept in memory for the provider's lifetime.
+ */
+export declare class TransformersJsProvider implements EmbeddingProvider {
     readonly modelName: string;
+    readonly dtype: OnnxDtype;
     private _dims;
-    private proc;
-    private rl;
-    private readonly pendingRequests;
-    private readonly pythonBin;
-    /** Whether the first stdout line (dims handshake) has been consumed. */
+    private _device;
+    private _pipeline;
     private initialized;
-    constructor(modelName: string, pythonBin?: string);
+    constructor(modelName: string, dtype?: OnnxDtype);
     /** Embedding dimensionality — available only after `init()`. */
     get dims(): number;
+    /** ONNX execution provider selected during init (cpu/coreml/webgpu). */
+    get device(): string;
     /**
-     * Spawn the Python subprocess, load the model, and read the `{"dims": N}`
-     * handshake line.  This may take a while on first run (model download).
+     * Load the model via Transformers.js and detect embedding dimensionality
+     * by running a single probe sentence.
      */
     init(): Promise<void>;
     embed(texts: string[]): Promise<number[][]>;
     dispose(): Promise<void>;
-    /** Spawn the Python subprocess and wire up the readline interface. */
-    private spawnProcess;
+    /**
+     * Detect the best available ONNX execution provider.
+     * Respects `LORE_EMBED_DEVICE` env var for explicit override.
+     */
+    private detectDevice;
 }
-/** Default embedding model used when no model is explicitly specified. */
-export declare const DEFAULT_EMBEDDING_MODEL = "Qwen/Qwen3-Embedding-4B";
 /**
- * Creates a `SentenceTransformersProvider` pre-configured for the specified
- * Qwen3-Embedding model size.
+ * Wraps a `TransformersJsProvider` with deferred initialisation.
+ *
+ * The model is only downloaded and loaded on the first call to `embed()` or
+ * an explicit `init()`.  This allows `lore index` to complete faster when
+ * embeddings are configured but the user primarily uses structural search.
  *
- * @param size      Model size variant: `'0.6B'`, `'4B'`, or `'8B'`.
- * @param pythonBin Path to the Python executable (default: `'python3'`).
+ * The MCP server can pass a `LazyEmbeddingProvider` so semantic search
+ * triggers model loading on-demand rather than at startup.
+ */
+export declare class LazyEmbeddingProvider implements EmbeddingProvider {
+    private readonly inner;
+    private _initPromise;
+    constructor(modelName: string, dtype?: OnnxDtype);
+    get modelName(): string;
+    get dims(): number;
+    init(): Promise<void>;
+    embed(texts: string[]): Promise<number[][]>;
+    dispose(): Promise<void>;
+}
+/**
+ * Default embedding model — `Qwen/Qwen3-Embedding-0.6B` is a compact,
+ * 1024-dim model with strong multilingual and code understanding.
  */
-export declare function Qwen3EmbeddingProvider(size: '0.6B' | '4B' | '8B', pythonBin?: string): SentenceTransformersProvider;
+export declare const DEFAULT_EMBEDDING_MODEL = "Qwen/Qwen3-Embedding-0.6B";
 //# sourceMappingURL=embedder.d.ts.map

package/dist/indexer/embedder.d.ts.map

@@ -1 +1 @@
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