@jcode.labs/ragmir 2.1.0 → 2.3.0

package/dist/index.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,oBAAoB,EAAE,MAAM,iBAAiB,CAAA;AACtD,OAAO,EAAE,UAAU,EAAE,MAAM,aAAa,CAAA;AACxC,OAAO,EAAE,YAAY,EAAE,MAAM,cAAc,CAAA;AAC3C,OAAO,EAAE,MAAM,EAAE,MAAM,aAAa,CAAA;AACpC,OAAO,EAAE,sBAAsB,EAAE,kBAAkB,EAAE,MAAM,iBAAiB,CAAA;AAC5E,OAAO,EAAE,qBAAqB,EAAE,MAAM,eAAe,CAAA;AACrD,OAAO,EAAE,KAAK,EAAE,MAAM,EAAE,MAAM,aAAa,CAAA;AAC3C,OAAO,EAAE,WAAW,EAAE,MAAM,WAAW,CAAA;AACvC,OAAO,EAAE,QAAQ,EAAE,MAAM,UAAU,CAAA;AACnC,YAAY,EAAE,cAAc,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAA;AACzE,OAAO,EAAE,oBAAoB,EAAE,SAAS,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAA;AACrF,OAAO,EAAE,GAAG,EAAE,MAAM,EAAE,MAAM,YAAY,CAAA;AACxC,OAAO,EAAE,UAAU,EAAE,MAAM,gBAAgB,CAAA;AAC3C,OAAO,EAAE,qBAAqB,EAAE,oBAAoB,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAA;AACrF,OAAO,EAAE,aAAa,EAAE,MAAM,eAAe,CAAA;AAC7C,OAAO,EAAE,wBAAwB,EAAE,MAAM,sBAAsB,CAAA;AAC/D,YAAY,EAAE,YAAY,EAAE,WAAW,EAAE,mBAAmB,EAAE,MAAM,YAAY,CAAA;AAChF,OAAO,EAAE,YAAY,EAAE,MAAM,YAAY,CAAA;AACzC,YAAY,EACV,eAAe,EACf,gBAAgB,EAChB,iBAAiB,EACjB,sBAAsB,EACtB,WAAW,EACX,yBAAyB,EACzB,wBAAwB,EACxB,mBAAmB,EACnB,kBAAkB,GACnB,MAAM,YAAY,CAAA;AACnB,OAAO,EACL,gBAAgB,EAChB,kBAAkB,EAClB,YAAY,EACZ,iBAAiB,EACjB,uBAAuB,GACxB,MAAM,YAAY,CAAA;AACnB,YAAY,EACV,uBAAuB,EACvB,sBAAsB,EACtB,mBAAmB,GACpB,MAAM,cAAc,CAAA;AACrB,OAAO,EAAE,gBAAgB,EAAE,iBAAiB,EAAE,MAAM,cAAc,CAAA;AAClE,YAAY,EACV,eAAe,EACf,qBAAqB,EACrB,oBAAoB,EACpB,SAAS,EACT,WAAW,EACX,YAAY,EACZ,mBAAmB,EACnB,MAAM,EACN,kBAAkB,EAClB,YAAY,EACZ,oBAAoB,EACpB,iBAAiB,EACjB,gBAAgB,EAChB,WAAW,EACX,YAAY,EACZ,gBAAgB,EAChB,eAAe,EACf,cAAc,EACd,YAAY,EACZ,mBAAmB,EACnB,iBAAiB,EACjB,wBAAwB,EACxB,mBAAmB,GACpB,MAAM,YAAY,CAAA;AACnB,OAAO,EAAE,OAAO,EAAE,MAAM,cAAc,CAAA"}
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,oBAAoB,EAAE,MAAM,iBAAiB,CAAA;AACtD,OAAO,EAAE,UAAU,EAAE,MAAM,aAAa,CAAA;AACxC,OAAO,EAAE,YAAY,EAAE,MAAM,cAAc,CAAA;AAC3C,OAAO,EAAE,MAAM,EAAE,MAAM,aAAa,CAAA;AACpC,OAAO,EAAE,sBAAsB,EAAE,kBAAkB,EAAE,MAAM,iBAAiB,CAAA;AAC5E,OAAO,EAAE,qBAAqB,EAAE,MAAM,eAAe,CAAA;AACrD,OAAO,EACL,wBAAwB,EACxB,qBAAqB,EACrB,oBAAoB,GACrB,MAAM,wBAAwB,CAAA;AAC/B,OAAO,EAAE,KAAK,EAAE,MAAM,EAAE,MAAM,aAAa,CAAA;AAC3C,OAAO,EAAE,WAAW,EAAE,MAAM,WAAW,CAAA;AACvC,OAAO,EAAE,QAAQ,EAAE,MAAM,UAAU,CAAA;AACnC,YAAY,EAAE,cAAc,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAA;AACzE,OAAO,EAAE,oBAAoB,EAAE,SAAS,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAA;AACrF,OAAO,EAAE,GAAG,EAAE,MAAM,EAAE,MAAM,YAAY,CAAA;AACxC,OAAO,EAAE,UAAU,EAAE,MAAM,gBAAgB,CAAA;AAC3C,OAAO,EAAE,qBAAqB,EAAE,oBAAoB,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAA;AACrF,OAAO,EAAE,aAAa,EAAE,MAAM,eAAe,CAAA;AAC7C,OAAO,EAAE,wBAAwB,EAAE,MAAM,sBAAsB,CAAA;AAC/D,YAAY,EAAE,YAAY,EAAE,WAAW,EAAE,mBAAmB,EAAE,MAAM,YAAY,CAAA;AAChF,OAAO,EAAE,YAAY,EAAE,MAAM,YAAY,CAAA;AACzC,YAAY,EACV,eAAe,EACf,gBAAgB,EAChB,iBAAiB,EACjB,sBAAsB,EACtB,WAAW,EACX,yBAAyB,EACzB,wBAAwB,EACxB,mBAAmB,EACnB,kBAAkB,GACnB,MAAM,YAAY,CAAA;AACnB,OAAO,EACL,gBAAgB,EAChB,kBAAkB,EAClB,YAAY,EACZ,iBAAiB,EACjB,uBAAuB,GACxB,MAAM,YAAY,CAAA;AACnB,YAAY,EACV,uBAAuB,EACvB,sBAAsB,EACtB,mBAAmB,GACpB,MAAM,cAAc,CAAA;AACrB,OAAO,EAAE,gBAAgB,EAAE,iBAAiB,EAAE,MAAM,cAAc,CAAA;AAClE,YAAY,EACV,eAAe,EACf,qBAAqB,EACrB,oBAAoB,EACpB,SAAS,EACT,WAAW,EACX,YAAY,EACZ,mBAAmB,EACnB,MAAM,EACN,kBAAkB,EAClB,YAAY,EACZ,oBAAoB,EACpB,iBAAiB,EACjB,gBAAgB,EAChB,WAAW,EACX,aAAa,EACb,YAAY,EACZ,gBAAgB,EAChB,eAAe,EACf,cAAc,EACd,YAAY,EACZ,mBAAmB,EACnB,iBAAiB,EACjB,wBAAwB,EACxB,mBAAmB,GACpB,MAAM,YAAY,CAAA;AACnB,OAAO,EAAE,OAAO,EAAE,MAAM,cAAc,CAAA"}

package/dist/index.js

@@ -4,6 +4,7 @@ export { destroyIndex } from "./destroy.js";
 export { doctor } from "./doctor.js";
 export { clearTransformersCache, pullEmbeddingModel } from "./embeddings.js";
 export { evaluateGoldenQueries } from "./evaluate.js";
+export { getIndexFreshnessWarning, getLexicalScanWarning, INDEX_SCHEMA_VERSION, } from "./index-diagnostics.js";
 export { audit, ingest } from "./ingest.js";
 export { initProject } from "./init.js";
 export { serveMcp } from "./mcp.js";

package/dist/index.js.map

@@ -1 +1 @@
-{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,oBAAoB,EAAE,MAAM,iBAAiB,CAAA;AACtD,OAAO,EAAE,UAAU,EAAE,MAAM,aAAa,CAAA;AACxC,OAAO,EAAE,YAAY,EAAE,MAAM,cAAc,CAAA;AAC3C,OAAO,EAAE,MAAM,EAAE,MAAM,aAAa,CAAA;AACpC,OAAO,EAAE,sBAAsB,EAAE,kBAAkB,EAAE,MAAM,iBAAiB,CAAA;AAC5E,OAAO,EAAE,qBAAqB,EAAE,MAAM,eAAe,CAAA;AACrD,OAAO,EAAE,KAAK,EAAE,MAAM,EAAE,MAAM,aAAa,CAAA;AAC3C,OAAO,EAAE,WAAW,EAAE,MAAM,WAAW,CAAA;AACvC,OAAO,EAAE,QAAQ,EAAE,MAAM,UAAU,CAAA;AAEnC,OAAO,EAAE,oBAAoB,EAAE,SAAS,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAA;AACrF,OAAO,EAAE,GAAG,EAAE,MAAM,EAAE,MAAM,YAAY,CAAA;AACxC,OAAO,EAAE,UAAU,EAAE,MAAM,gBAAgB,CAAA;AAC3C,OAAO,EAAE,qBAAqB,EAAE,oBAAoB,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAA;AACrF,OAAO,EAAE,aAAa,EAAE,MAAM,eAAe,CAAA;AAC7C,OAAO,EAAE,wBAAwB,EAAE,MAAM,sBAAsB,CAAA;AAE/D,OAAO,EAAE,YAAY,EAAE,MAAM,YAAY,CAAA;AAYzC,OAAO,EACL,gBAAgB,EAChB,kBAAkB,EAClB,YAAY,EACZ,iBAAiB,EACjB,uBAAuB,GACxB,MAAM,YAAY,CAAA;AAMnB,OAAO,EAAE,gBAAgB,EAAE,iBAAiB,EAAE,MAAM,cAAc,CAAA;AA0BlE,OAAO,EAAE,OAAO,EAAE,MAAM,cAAc,CAAA"}
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,oBAAoB,EAAE,MAAM,iBAAiB,CAAA;AACtD,OAAO,EAAE,UAAU,EAAE,MAAM,aAAa,CAAA;AACxC,OAAO,EAAE,YAAY,EAAE,MAAM,cAAc,CAAA;AAC3C,OAAO,EAAE,MAAM,EAAE,MAAM,aAAa,CAAA;AACpC,OAAO,EAAE,sBAAsB,EAAE,kBAAkB,EAAE,MAAM,iBAAiB,CAAA;AAC5E,OAAO,EAAE,qBAAqB,EAAE,MAAM,eAAe,CAAA;AACrD,OAAO,EACL,wBAAwB,EACxB,qBAAqB,EACrB,oBAAoB,GACrB,MAAM,wBAAwB,CAAA;AAC/B,OAAO,EAAE,KAAK,EAAE,MAAM,EAAE,MAAM,aAAa,CAAA;AAC3C,OAAO,EAAE,WAAW,EAAE,MAAM,WAAW,CAAA;AACvC,OAAO,EAAE,QAAQ,EAAE,MAAM,UAAU,CAAA;AAEnC,OAAO,EAAE,oBAAoB,EAAE,SAAS,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAA;AACrF,OAAO,EAAE,GAAG,EAAE,MAAM,EAAE,MAAM,YAAY,CAAA;AACxC,OAAO,EAAE,UAAU,EAAE,MAAM,gBAAgB,CAAA;AAC3C,OAAO,EAAE,qBAAqB,EAAE,oBAAoB,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAA;AACrF,OAAO,EAAE,aAAa,EAAE,MAAM,eAAe,CAAA;AAC7C,OAAO,EAAE,wBAAwB,EAAE,MAAM,sBAAsB,CAAA;AAE/D,OAAO,EAAE,YAAY,EAAE,MAAM,YAAY,CAAA;AAYzC,OAAO,EACL,gBAAgB,EAChB,kBAAkB,EAClB,YAAY,EACZ,iBAAiB,EACjB,uBAAuB,GACxB,MAAM,YAAY,CAAA;AAMnB,OAAO,EAAE,gBAAgB,EAAE,iBAAiB,EAAE,MAAM,cAAc,CAAA;AA2BlE,OAAO,EAAE,OAAO,EAAE,MAAM,cAAc,CAAA"}

package/dist/ingest.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"ingest.d.ts","sourceRoot":"","sources":["../src/ingest.ts"],"names":[],"mappings":"AAoBA,OAAO,KAAK,EACV,WAAW,EACX,aAAa,EACb,YAAY,EAMb,MAAM,YAAY,CAAA;AAmBnB,wBAAsB,MAAM,CAAC,OAAO,GAAE,aAAkB,GAAG,OAAO,CAAC,YAAY,CAAC,CAuG/E;AAkCD,wBAAsB,KAAK,CAAC,GAAG,SAAgB,GAAG,OAAO,CAAC,WAAW,CAAC,CAiErE"}
+{"version":3,"file":"ingest.d.ts","sourceRoot":"","sources":["../src/ingest.ts"],"names":[],"mappings":"AAsBA,OAAO,KAAK,EACV,WAAW,EACX,aAAa,EACb,YAAY,EAMb,MAAM,YAAY,CAAA;AAoBnB,wBAAsB,MAAM,CAAC,OAAO,GAAE,aAAkB,GAAG,OAAO,CAAC,YAAY,CAAC,CAwH/E;AAkCD,wBAAsB,KAAK,CAAC,GAAG,SAAgB,GAAG,OAAO,CAAC,WAAW,CAAC,CAiErE"}

package/dist/ingest.js

@@ -4,10 +4,12 @@ import { chunkDocument } from "./chunking.js";
 import { loadConfig } from "./config.js";
 import { embedTexts } from "./embeddings.js";
 import { countSkippedByReason, inventorySourceFiles, summarizeUnsupportedExtensions, } from "./files.js";
+import { INDEX_SCHEMA_VERSION } from "./index-diagnostics.js";
 import { parseFile } from "./parsing.js";
 import { redactText, totalRedactions } from "./redaction.js";
-import { openRowsTable, readEmptyTextFiles, readRows, writeEmptyTextFiles, writeRows, } from "./store.js";
+import { openRowsTable, readEmptyTextFiles, readRows, writeEmptyTextFiles, writeIndexManifest, writeRows, } from "./store.js";
 import { normalizeForMatch } from "./text.js";
+import { VERSION } from "./version.js";
 const MAX_AUDIT_ROWS = 100_000;
 const MAX_SOURCE_DIAGNOSTIC_ITEMS = 20;
 const ARCHIVE_PATH_PATTERNS = [
@@ -87,7 +89,20 @@ export async function ingest(options = {}) {
         }
     }
     const indexRows = [...reusableRows, ...rows];
-    await writeRows(indexRows, config);
+    const writeResult = await writeRows(indexRows, config);
+    if (indexRows.length > 0) {
+        await writeIndexManifest({
+            schemaVersion: INDEX_SCHEMA_VERSION,
+            createdAt: new Date().toISOString(),
+            ragmirVersion: VERSION,
+            embeddingProvider: config.embeddingProvider,
+            embeddingModel: config.embeddingModel,
+            chunkSize: config.chunkSize,
+            chunkOverlap: config.chunkOverlap,
+            fileCount: new Set(indexRows.map((row) => row.relativePath)).size,
+            chunkCount: indexRows.length,
+        }, config);
+    }
     await writeEmptyTextFiles(emptyTextFiles.flatMap((relativePath) => {
         const file = currentFiles.get(relativePath);
         return file ? [{ relativePath, checksum: file.checksum }] : [];
@@ -111,6 +126,7 @@ export async function ingest(options = {}) {
         emptyTextFiles,
         unsupportedExtensions: summarizeUnsupportedExtensions(inventory.skippedFiles),
         redactions: totalRedactions(redactionCounts),
+        vectorIndexWarning: writeResult.vectorIndexWarning,
         errors,
     };
 }

package/dist/ingest.js.map

@@ -1 +1 @@
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package/dist/query.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"query.d.ts","sourceRoot":"","sources":["../src/query.ts"],"names":[],"mappings":"AAKA,OAAO,KAAK,EAAE,SAAS,EAAE,aAAa,EAAE,YAAY,EAAE,MAAM,YAAY,CAAA;AAuCxE,wBAAsB,MAAM,CAAC,KAAK,EAAE,MAAM,EAAE,OAAO,GAAE,aAAkB,GAAG,OAAO,CAAC,YAAY,EAAE,CAAC,CA8BhG;AAED,wBAAgB,oBAAoB,CAAC,IAAI,EAAE,MAAM,GAAG,MAAM,CAEzD;AAED,wBAAsB,GAAG,CAAC,KAAK,EAAE,MAAM,EAAE,OAAO,GAAE,aAAkB,GAAG,OAAO,CAAC,SAAS,CAAC,CAsBxF"}
+{"version":3,"file":"query.d.ts","sourceRoot":"","sources":["../src/query.ts"],"names":[],"mappings":"AAMA,OAAO,KAAK,EAAE,SAAS,EAAE,aAAa,EAAE,YAAY,EAAE,MAAM,YAAY,CAAA;AAsCxE,wBAAsB,MAAM,CAAC,KAAK,EAAE,MAAM,EAAE,OAAO,GAAE,aAAkB,GAAG,OAAO,CAAC,YAAY,EAAE,CAAC,CA8BhG;AAED,wBAAgB,oBAAoB,CAAC,IAAI,EAAE,MAAM,GAAG,MAAM,CAEzD;AAED,wBAAsB,GAAG,CAAC,KAAK,EAAE,MAAM,EAAE,OAAO,GAAE,aAAkB,GAAG,OAAO,CAAC,SAAS,CAAC,CAyBxF"}

package/dist/query.js

@@ -1,11 +1,11 @@
 import { recordAccess } from "./access-log.js";
 import { loadConfig } from "./config.js";
 import { embedText } from "./embeddings.js";
+import { getIndexFreshnessWarning } from "./index-diagnostics.js";
 import { openRowsTable } from "./store.js";
 import { tokenize } from "./text.js";
 const MIN_VECTOR_CANDIDATES = 80;
 const VECTOR_CANDIDATE_MULTIPLIER = 4;
-const HYBRID_TEXT_SCAN_LIMIT = 5_000;
 /**
  * Reciprocal Rank Fusion (Cormack et al. 2009). Each candidate scores
  * `weight / (RRF_K + rank)` per retriever it appears in, summed across
@@ -36,7 +36,7 @@ export async function search(query, options = {}) {
         .vectorSearch(vector)
         .limit(vectorCandidateLimit(topK))
         .toArray());
-    const textRows = (await table.query().limit(HYBRID_TEXT_SCAN_LIMIT).toArray());
+    const textRows = (await table.query().limit(config.hybridTextScanLimit).toArray());
     const rows = rankHybridRows(query, vectorRows, textRows).slice(0, topK);
     const results = rows.map((row) => ({
         source: row.row.source,
@@ -59,10 +59,12 @@ export function vectorCandidateLimit(topK) {
 export async function ask(query, options = {}) {
     const config = await loadConfig(String(options.cwd ?? process.cwd()));
     const sources = await search(query, options);
+    const staleWarning = await getIndexFreshnessWarning(config);
     if (sources.length === 0) {
         return {
             answer: "No relevant passages were found. Add documents and run `ragmir doctor --fix` first.",
             sources,
+            staleWarning,
         };
     }
     await recordAccess(config, {
@@ -74,6 +76,7 @@ export async function ask(query, options = {}) {
     return {
         answer: retrievalOnlyAnswer(sources),
         sources,
+        staleWarning,
     };
 }
 function retrievalOnlyAnswer(sources) {

package/dist/query.js.map

@@ -1 +1 @@
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package/dist/sources.d.ts

@@ -1,4 +1,5 @@
 export interface SourceEntriesResult {
+    /** Where the listed entries come from: always config.json now. */
     sourcesFile: string;
     entries: string[];
 }
@@ -7,10 +8,22 @@ export interface AddSourceEntriesOptions {
     entries: readonly string[];
 }
 export interface AddSourceEntriesResult {
+    /** config.json path the entries were written to. */
     sourcesFile: string;
     added: string[];
     skipped: string[];
 }
+/**
+ * List the configured source entries. Sources live in the `sources` array of
+ * `.ragmir/config.json` (the primary mechanism). A legacy `.ragmir/sources.txt`
+ * is still read and merged when present so existing projects keep working, but
+ * it is never created or written by these functions anymore.
+ */
 export declare function listSourceEntries(cwd?: string): Promise<SourceEntriesResult>;
+/**
+ * Add source entries to the `sources` array of `.ragmir/config.json`. Does not
+ * touch the legacy `sources.txt` file anymore; entries already present there
+ * are treated as existing (skipped) to avoid duplicates.
+ */
 export declare function addSourceEntries(options: AddSourceEntriesOptions): Promise<AddSourceEntriesResult>;
 //# sourceMappingURL=sources.d.ts.map

package/dist/sources.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"sources.d.ts","sourceRoot":"","sources":["../src/sources.ts"],"names":[],"mappings":"AAMA,MAAM,WAAW,mBAAmB;IAClC,WAAW,EAAE,MAAM,CAAA;IACnB,OAAO,EAAE,MAAM,EAAE,CAAA;CAClB;AAED,MAAM,WAAW,uBAAuB;IACtC,GAAG,CAAC,EAAE,MAAM,CAAA;IACZ,OAAO,EAAE,SAAS,MAAM,EAAE,CAAA;CAC3B;AAED,MAAM,WAAW,sBAAsB;IACrC,WAAW,EAAE,MAAM,CAAA;IACnB,KAAK,EAAE,MAAM,EAAE,CAAA;IACf,OAAO,EAAE,MAAM,EAAE,CAAA;CAClB;AAED,wBAAsB,iBAAiB,CAAC,GAAG,SAAgB,GAAG,OAAO,CAAC,mBAAmB,CAAC,CAOzF;AAED,wBAAsB,gBAAgB,CACpC,OAAO,EAAE,uBAAuB,GAC/B,OAAO,CAAC,sBAAsB,CAAC,CA+BjC"}
+{"version":3,"file":"sources.d.ts","sourceRoot":"","sources":["../src/sources.ts"],"names":[],"mappings":"AAKA,MAAM,WAAW,mBAAmB;IAClC,kEAAkE;IAClE,WAAW,EAAE,MAAM,CAAA;IACnB,OAAO,EAAE,MAAM,EAAE,CAAA;CAClB;AAED,MAAM,WAAW,uBAAuB;IACtC,GAAG,CAAC,EAAE,MAAM,CAAA;IACZ,OAAO,EAAE,SAAS,MAAM,EAAE,CAAA;CAC3B;AAED,MAAM,WAAW,sBAAsB;IACrC,oDAAoD;IACpD,WAAW,EAAE,MAAM,CAAA;IACnB,KAAK,EAAE,MAAM,EAAE,CAAA;IACf,OAAO,EAAE,MAAM,EAAE,CAAA;CAClB;AAED;;;;;GAKG;AACH,wBAAsB,iBAAiB,CAAC,GAAG,SAAgB,GAAG,OAAO,CAAC,mBAAmB,CAAC,CAczF;AAED;;;;GAIG;AACH,wBAAsB,gBAAgB,CACpC,OAAO,EAAE,uBAAuB,GAC/B,OAAO,CAAC,sBAAsB,CAAC,CAkCjC"}

package/dist/sources.js

@@ -1,27 +1,48 @@
 import { existsSync } from "node:fs";
 import { mkdir, readFile, writeFile } from "node:fs/promises";
 import path from "node:path";
-import { loadConfig } from "./config.js";
-import { SOURCES_FILE_HEADER } from "./defaults.js";
+import { findProjectConfig, loadConfig } from "./config.js";
+/**
+ * List the configured source entries. Sources live in the `sources` array of
+ * `.ragmir/config.json` (the primary mechanism). A legacy `.ragmir/sources.txt`
+ * is still read and merged when present so existing projects keep working, but
+ * it is never created or written by these functions anymore.
+ */
 export async function listSourceEntries(cwd = process.cwd()) {
     const config = await loadConfig(cwd);
-    const content = await readSourcesFile(config.sourcesFile);
-    return {
-        sourcesFile: config.sourcesFile,
-        entries: content ? parseSourceEntries(content) : [],
-    };
+    const projectConfig = findProjectConfig(cwd);
+    const configEntries = await readConfigSources(projectConfig);
+    const legacyEntries = await readLegacySourcesTxt(config.sourcesFile);
+    const seen = new Set();
+    const entries = [];
+    for (const entry of [...configEntries, ...legacyEntries]) {
+        if (!seen.has(entry)) {
+            seen.add(entry);
+            entries.push(entry);
+        }
+    }
+    return { sourcesFile: projectConfig.configPath, entries };
 }
+/**
+ * Add source entries to the `sources` array of `.ragmir/config.json`. Does not
+ * touch the legacy `sources.txt` file anymore; entries already present there
+ * are treated as existing (skipped) to avoid duplicates.
+ */
 export async function addSourceEntries(options) {
-    const entries = normalizeRequestedEntries(options.entries);
-    if (entries.length === 0) {
+    const requested = normalizeRequestedEntries(options.entries);
+    if (requested.length === 0) {
         throw new Error("At least one source path or glob is required.");
     }
     const config = await loadConfig(options.cwd);
-    const content = await readSourcesFile(config.sourcesFile);
-    const existingEntries = new Set(content ? parseSourceEntries(content) : []);
+    const projectConfig = findProjectConfig(options.cwd ?? process.cwd());
+    const configEntries = await readConfigSources(projectConfig);
+    const existingEntries = new Set([
+        ...configEntries,
+        ...(await readLegacySourcesTxt(config.sourcesFile)),
+    ]);
     const added = [];
     const skipped = [];
-    for (const entry of entries) {
+    for (const entry of requested) {
         if (existingEntries.has(entry)) {
             skipped.push(entry);
             continue;
@@ -30,20 +51,49 @@ export async function addSourceEntries(options) {
         added.push(entry);
     }
     if (added.length > 0) {
-        await mkdir(path.dirname(config.sourcesFile), { recursive: true });
-        await writeFile(config.sourcesFile, nextSourcesFileContent(content, added), "utf8");
+        await writeConfigSources(projectConfig, [...configEntries, ...added]);
     }
     return {
-        sourcesFile: config.sourcesFile,
+        sourcesFile: projectConfig.configPath,
         added,
         skipped,
     };
 }
-async function readSourcesFile(sourcesFile) {
+/** Read the raw `sources` array from config.json without resolving paths. */
+async function readConfigSources(projectConfig) {
+    if (!existsSync(projectConfig.configPath)) {
+        return [];
+    }
+    try {
+        const raw = JSON.parse(await readFile(projectConfig.configPath, "utf8"));
+        if (isRecord(raw) && Array.isArray(raw.sources)) {
+            return raw.sources.filter((entry) => typeof entry === "string");
+        }
+    }
+    catch {
+        // Fall back to empty if the config is unreadable; loadConfig surfaces real errors elsewhere.
+    }
+    return [];
+}
+/** Write the `sources` array back into config.json, preserving other fields. */
+async function writeConfigSources(projectConfig, entries) {
+    await mkdir(path.dirname(projectConfig.configPath), { recursive: true });
+    const raw = existsSync(projectConfig.configPath)
+        ? JSON.parse(await readFile(projectConfig.configPath, "utf8"))
+        : {};
+    if (!isRecord(raw)) {
+        throw new Error(`${path.relative(projectConfig.projectRoot, projectConfig.configPath)} must contain a JSON object.`);
+    }
+    raw.sources = [...entries];
+    await writeFile(projectConfig.configPath, `${JSON.stringify(raw, null, 2)}\n`, "utf8");
+}
+/** Read the legacy sources.txt read-only for backward compatibility. */
+async function readLegacySourcesTxt(sourcesFile) {
     if (!existsSync(sourcesFile)) {
-        return null;
+        return [];
     }
-    return readFile(sourcesFile, "utf8");
+    const content = await readFile(sourcesFile, "utf8");
+    return parseSourceEntries(content);
 }
 function parseSourceEntries(content) {
     return content
@@ -64,8 +114,7 @@ function normalizeRequestedEntries(entries) {
     }
     return normalized;
 }
-function nextSourcesFileContent(currentContent, added) {
-    const base = currentContent === null ? SOURCES_FILE_HEADER.join("\n") : currentContent.trimEnd();
-    return `${base ? `${base}\n` : ""}${added.join("\n")}\n`;
+function isRecord(value) {
+    return typeof value === "object" && value !== null && !Array.isArray(value);
 }
 //# sourceMappingURL=sources.js.map

package/dist/sources.js.map

@@ -1 +1 @@
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+{"version":3,"file":"sources.js","sourceRoot":"","sources":["../src/sources.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,UAAU,EAAE,MAAM,SAAS,CAAA;AACpC,OAAO,EAAE,KAAK,EAAE,QAAQ,EAAE,SAAS,EAAE,MAAM,kBAAkB,CAAA;AAC7D,OAAO,IAAI,MAAM,WAAW,CAAA;AAC5B,OAAO,EAAE,iBAAiB,EAAE,UAAU,EAAE,MAAM,aAAa,CAAA;AAoB3D;;;;;GAKG;AACH,MAAM,CAAC,KAAK,UAAU,iBAAiB,CAAC,GAAG,GAAG,OAAO,CAAC,GAAG,EAAE;IACzD,MAAM,MAAM,GAAG,MAAM,UAAU,CAAC,GAAG,CAAC,CAAA;IACpC,MAAM,aAAa,GAAG,iBAAiB,CAAC,GAAG,CAAC,CAAA;IAC5C,MAAM,aAAa,GAAG,MAAM,iBAAiB,CAAC,aAAa,CAAC,CAAA;IAC5D,MAAM,aAAa,GAAG,MAAM,oBAAoB,CAAC,MAAM,CAAC,WAAW,CAAC,CAAA;IACpE,MAAM,IAAI,GAAG,IAAI,GAAG,EAAU,CAAA;IAC9B,MAAM,OAAO,GAAa,EAAE,CAAA;IAC5B,KAAK,MAAM,KAAK,IAAI,CAAC,GAAG,aAAa,EAAE,GAAG,aAAa,CAAC,EAAE,CAAC;QACzD,IAAI,CAAC,IAAI,CAAC,GAAG,CAAC,KAAK,CAAC,EAAE,CAAC;YACrB,IAAI,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;YACf,OAAO,CAAC,IAAI,CAAC,KAAK,CAAC,CAAA;QACrB,CAAC;IACH,CAAC;IACD,OAAO,EAAE,WAAW,EAAE,aAAa,CAAC,UAAU,EAAE,OAAO,EAAE,CAAA;AAC3D,CAAC;AAED;;;;GAIG;AACH,MAAM,CAAC,KAAK,UAAU,gBAAgB,CACpC,OAAgC;IAEhC,MAAM,SAAS,GAAG,yBAAyB,CAAC,OAAO,CAAC,OAAO,CAAC,CAAA;IAC5D,IAAI,SAAS,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;QAC3B,MAAM,IAAI,KAAK,CAAC,+CAA+C,CAAC,CAAA;IAClE,CAAC;IAED,MAAM,MAAM,GAAG,MAAM,UAAU,CAAC,OAAO,CAAC,GAAG,CAAC,CAAA;IAC5C,MAAM,aAAa,GAAG,iBAAiB,CAAC,OAAO,CAAC,GAAG,IAAI,OAAO,CAAC,GAAG,EAAE,CAAC,CAAA;IACrE,MAAM,aAAa,GAAG,MAAM,iBAAiB,CAAC,aAAa,CAAC,CAAA;IAC5D,MAAM,eAAe,GAAG,IAAI,GAAG,CAAS;QACtC,GAAG,aAAa;QAChB,GAAG,CAAC,MAAM,oBAAoB,CAAC,MAAM,CAAC,WAAW,CAAC,CAAC;KACpD,CAAC,CAAA;IACF,MAAM,KAAK,GAAa,EAAE,CAAA;IAC1B,MAAM,OAAO,GAAa,EAAE,CAAA;IAE5B,KAAK,MAAM,KAAK,IAAI,SAAS,EAAE,CAAC;QAC9B,IAAI,eAAe,CAAC,GAAG,CAAC,KAAK,CAAC,EAAE,CAAC;YAC/B,OAAO,CAAC,IAAI,CAAC,KAAK,CAAC,CAAA;YACnB,SAAQ;QACV,CAAC;QACD,eAAe,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;QAC1B,KAAK,CAAC,IAAI,CAAC,KAAK,CAAC,CAAA;IACnB,CAAC;IAED,IAAI,KAAK,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;QACrB,MAAM,kBAAkB,CAAC,aAAa,EAAE,CAAC,GAAG,aAAa,EAAE,GAAG,KAAK,CAAC,CAAC,CAAA;IACvE,CAAC;IAED,OAAO;QACL,WAAW,EAAE,aAAa,CAAC,UAAU;QACrC,KAAK;QACL,OAAO;KACR,CAAA;AACH,CAAC;AAED,6EAA6E;AAC7E,KAAK,UAAU,iBAAiB,CAAC,aAGhC;IACC,IAAI,CAAC,UAAU,CAAC,aAAa,CAAC,UAAU,CAAC,EAAE,CAAC;QAC1C,OAAO,EAAE,CAAA;IACX,CAAC;IACD,IAAI,CAAC;QACH,MAAM,GAAG,GAAG,IAAI,CAAC,KAAK,CAAC,MAAM,QAAQ,CAAC,aAAa,CAAC,UAAU,EAAE,MAAM,CAAC,CAAY,CAAA;QACnF,IAAI,QAAQ,CAAC,GAAG,CAAC,IAAI,KAAK,CAAC,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC,EAAE,CAAC;YAChD,OAAO,GAAG,CAAC,OAAO,CAAC,MAAM,CAAC,CAAC,KAAK,EAAmB,EAAE,CAAC,OAAO,KAAK,KAAK,QAAQ,CAAC,CAAA;QAClF,CAAC;IACH,CAAC;IAAC,MAAM,CAAC;QACP,6FAA6F;IAC/F,CAAC;IACD,OAAO,EAAE,CAAA;AACX,CAAC;AAED,gFAAgF;AAChF,KAAK,UAAU,kBAAkB,CAC/B,aAA0D,EAC1D,OAA0B;IAE1B,MAAM,KAAK,CAAC,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,UAAU,CAAC,EAAE,EAAE,SAAS,EAAE,IAAI,EAAE,CAAC,CAAA;IACxE,MAAM,GAAG,GAAG,UAAU,CAAC,aAAa,CAAC,UAAU,CAAC;QAC9C,CAAC,CAAE,IAAI,CAAC,KAAK,CAAC,MAAM,QAAQ,CAAC,aAAa,CAAC,UAAU,EAAE,MAAM,CAAC,CAAa;QAC3E,CAAC,CAAC,EAAE,CAAA;IACN,IAAI,CAAC,QAAQ,CAAC,GAAG,CAAC,EAAE,CAAC;QACnB,MAAM,IAAI,KAAK,CACb,GAAG,IAAI,CAAC,QAAQ,CAAC,aAAa,CAAC,WAAW,EAAE,aAAa,CAAC,UAAU,CAAC,8BAA8B,CACpG,CAAA;IACH,CAAC;IACD,GAAG,CAAC,OAAO,GAAG,CAAC,GAAG,OAAO,CAAC,CAAA;IAC1B,MAAM,SAAS,CAAC,aAAa,CAAC,UAAU,EAAE,GAAG,IAAI,CAAC,SAAS,CAAC,GAAG,EAAE,IAAI,EAAE,CAAC,CAAC,IAAI,EAAE,MAAM,CAAC,CAAA;AACxF,CAAC;AAED,wEAAwE;AACxE,KAAK,UAAU,oBAAoB,CAAC,WAAmB;IACrD,IAAI,CAAC,UAAU,CAAC,WAAW,CAAC,EAAE,CAAC;QAC7B,OAAO,EAAE,CAAA;IACX,CAAC;IACD,MAAM,OAAO,GAAG,MAAM,QAAQ,CAAC,WAAW,EAAE,MAAM,CAAC,CAAA;IACnD,OAAO,kBAAkB,CAAC,OAAO,CAAC,CAAA;AACpC,CAAC;AAED,SAAS,kBAAkB,CAAC,OAAe;IACzC,OAAO,OAAO;SACX,KAAK,CAAC,QAAQ,CAAC;SACf,GAAG,CAAC,CAAC,IAAI,EAAE,EAAE,CAAC,IAAI,CAAC,IAAI,EAAE,CAAC;SAC1B,MAAM,CAAC,CAAC,IAAI,EAAE,EAAE,CAAC,IAAI,CAAC,MAAM,GAAG,CAAC,IAAI,CAAC,IAAI,CAAC,UAAU,CAAC,GAAG,CAAC,CAAC,CAAA;AAC/D,CAAC;AAED,SAAS,yBAAyB,CAAC,OAA0B;IAC3D,MAAM,UAAU,GAAa,EAAE,CAAA;IAC/B,MAAM,IAAI,GAAG,IAAI,GAAG,EAAU,CAAA;IAC9B,KAAK,MAAM,KAAK,IAAI,OAAO,EAAE,CAAC;QAC5B,MAAM,OAAO,GAAG,KAAK,CAAC,IAAI,EAAE,CAAA;QAC5B,IAAI,CAAC,OAAO,IAAI,IAAI,CAAC,GAAG,CAAC,OAAO,CAAC,EAAE,CAAC;YAClC,SAAQ;QACV,CAAC;QACD,IAAI,CAAC,GAAG,CAAC,OAAO,CAAC,CAAA;QACjB,UAAU,CAAC,IAAI,CAAC,OAAO,CAAC,CAAA;IAC1B,CAAC;IACD,OAAO,UAAU,CAAA;AACnB,CAAC;AAED,SAAS,QAAQ,CAAC,KAAc;IAC9B,OAAO,OAAO,KAAK,KAAK,QAAQ,IAAI,KAAK,KAAK,IAAI,IAAI,CAAC,KAAK,CAAC,OAAO,CAAC,KAAK,CAAC,CAAA;AAC7E,CAAC"}

package/dist/store.d.ts

@@ -1,10 +1,15 @@
 import * as lancedb from "@lancedb/lancedb";
-import type { Config, VectorRow } from "./types.js";
+import type { Config, IndexManifest, VectorRow } from "./types.js";
 export interface EmptyTextFileRecord {
     relativePath: string;
     checksum: string;
 }
-export declare function writeRows(rows: VectorRow[], config: Config): Promise<void>;
+export interface IndexWriteResult {
+    vectorIndexWarning: string | null;
+}
+export declare function writeRows(rows: VectorRow[], config: Config): Promise<IndexWriteResult>;
+export declare function writeIndexManifest(manifest: IndexManifest, config: Config): Promise<void>;
+export declare function readIndexManifest(config: Config): Promise<IndexManifest | null>;
 export declare function writeEmptyTextFiles(records: EmptyTextFileRecord[], config: Config): Promise<void>;
 export declare function readEmptyTextFiles(config: Config): Promise<EmptyTextFileRecord[]>;
 export declare function openRowsTable(config: Config): Promise<lancedb.Table | null>;

package/dist/store.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"store.d.ts","sourceRoot":"","sources":["../src/store.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,OAAO,MAAM,kBAAkB,CAAA;AAE3C,OAAO,KAAK,EAAE,MAAM,EAAE,aAAa,EAAE,SAAS,EAAE,MAAM,YAAY,CAAA;AAkBlE,MAAM,WAAW,mBAAmB;IAClC,YAAY,EAAE,MAAM,CAAA;IACpB,QAAQ,EAAE,MAAM,CAAA;CACjB;AAED,MAAM,WAAW,gBAAgB;IAC/B,kBAAkB,EAAE,MAAM,GAAG,IAAI,CAAA;CAClC;AAED,wBAAsB,SAAS,CAAC,IAAI,EAAE,SAAS,EAAE,EAAE,MAAM,EAAE,MAAM,GAAG,OAAO,CAAC,gBAAgB,CAAC,CA4B5F;AA4CD,wBAAsB,kBAAkB,CAAC,QAAQ,EAAE,aAAa,EAAE,MAAM,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAI/F;AAED,wBAAsB,iBAAiB,CAAC,MAAM,EAAE,MAAM,GAAG,OAAO,CAAC,aAAa,GAAG,IAAI,CAAC,CAqBrF;AAmBD,wBAAsB,mBAAmB,CACvC,OAAO,EAAE,mBAAmB,EAAE,EAC9B,MAAM,EAAE,MAAM,GACb,OAAO,CAAC,IAAI,CAAC,CAcf;AAED,wBAAsB,kBAAkB,CAAC,MAAM,EAAE,MAAM,GAAG,OAAO,CAAC,mBAAmB,EAAE,CAAC,CAevF;AAED,wBAAsB,aAAa,CAAC,MAAM,EAAE,MAAM,GAAG,OAAO,CAAC,OAAO,CAAC,KAAK,GAAG,IAAI,CAAC,CAOjF;AAED,wBAAsB,QAAQ,CAAC,MAAM,EAAE,MAAM,GAAG,OAAO,CAAC,SAAS,EAAE,CAAC,CASnE;AAED,wBAAsB,SAAS,CAAC,MAAM,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,CAAC,CAG/D"}

package/dist/store.js

@@ -3,6 +3,7 @@ import path from "node:path";
 import * as lancedb from "@lancedb/lancedb";
 import { isRecord } from "./guards.js";
 const EMPTY_TEXT_FILES_MANIFEST = "empty-text-files.json";
+const INDEX_MANIFEST = "index-manifest.json";
 /**
  * LanceDB requires a minimum number of rows to train an IVF_PQ vector index.
  * Below this threshold, brute-force (flat) scan is used instead, which is
@@ -24,7 +25,8 @@ export async function writeRows(rows, config) {
         if (tableNames.includes(config.tableName)) {
             await db.dropTable(config.tableName);
         }
-        return;
+        await rm(path.join(config.storageDir, INDEX_MANIFEST), { force: true });
+        return { vectorIndexWarning: null };
     }
     const records = rows.map((row) => ({ ...row }));
     const table = await db.createTable(config.tableName, records, {
@@ -34,15 +36,17 @@ export async function writeRows(rows, config) {
     // from approximate nearest-neighbour search. Below the threshold, LanceDB
     // falls back to an exact flat scan, which is faster for small corpora and
     // avoids wasting work training an index on too few vectors.
-    if (rows.length >= MIN_INDEX_ROWS) {
-        await ensureVectorIndex(table, rows.length);
+    if (rows.length < MIN_INDEX_ROWS) {
+        return { vectorIndexWarning: null };
     }
+    const result = await ensureVectorIndex(table, rows.length);
+    return { vectorIndexWarning: result.warning };
 }
 async function ensureVectorIndex(table, rowCount) {
     const existing = await table.listIndices();
     const hasVectorIndex = existing.some((index) => index.name === "vector_idx");
     if (hasVectorIndex) {
-        return;
+        return { created: false, warning: null };
     }
     // numSubVectors must divide the vector dimension evenly. 16 is a safe default
     // for the 384-dim local-hash and mxbai-xsmall models; LanceDB validates and
@@ -54,15 +58,62 @@ async function ensureVectorIndex(table, rowCount) {
         await table.createIndex("vector", {
             config: lancedb.Index.ivfPq({ numPartitions, numSubVectors }),
         });
+        return { created: true, warning: null };
     }
-    catch {
+    catch (error) {
         // Index training can fail on edge-case dimensionality or tiny effective
-        // corpora; the table remains usable via flat scan. Do not fail the ingest.
+        // corpora; the table remains usable via flat scan, but the operator
+        // deserves to know queries will be slower than expected.
+        const detail = error instanceof Error ? error.message : String(error);
+        return {
+            created: false,
+            warning: `Vector index training failed (${detail}). Falling back to flat scan; queries will be slower on large corpora.`,
+        };
     }
 }
 function clampIvfPartitions(value) {
     return Math.min(MAX_IVF_PARTITIONS, Math.max(MIN_IVF_PARTITIONS, value));
 }
+export async function writeIndexManifest(manifest, config) {
+    await mkdir(config.storageDir, { recursive: true });
+    const manifestPath = path.join(config.storageDir, INDEX_MANIFEST);
+    await writeFile(manifestPath, JSON.stringify(manifest, null, 2), "utf8");
+}
+export async function readIndexManifest(config) {
+    try {
+        const raw = JSON.parse(await readFile(path.join(config.storageDir, INDEX_MANIFEST), "utf8"));
+        if (!isRecord(raw)) {
+            return null;
+        }
+        return isIndexManifest(raw) ? raw : null;
+    }
+    catch (error) {
+        // The manifest is purely diagnostic. A missing file (pre-manifest index) or
+        // a corrupt/unreadable file should surface as "no freshness info" rather
+        // than fail the caller.
+        if (error instanceof SyntaxError) {
+            return null;
+        }
+        if (isNodeError(error) && error.code === "ENOENT") {
+            return null;
+        }
+        throw error;
+    }
+}
+function isIndexManifest(value) {
+    if (!isRecord(value)) {
+        return false;
+    }
+    return (typeof value.schemaVersion === "number" &&
+        typeof value.createdAt === "string" &&
+        typeof value.ragmirVersion === "string" &&
+        (value.embeddingProvider === "local-hash" || value.embeddingProvider === "transformers") &&
+        typeof value.embeddingModel === "string" &&
+        typeof value.chunkSize === "number" &&
+        typeof value.chunkOverlap === "number" &&
+        typeof value.fileCount === "number" &&
+        typeof value.chunkCount === "number");
+}
 export async function writeEmptyTextFiles(records, config) {
     const manifestPath = path.join(config.storageDir, EMPTY_TEXT_FILES_MANIFEST);
     if (records.length === 0) {

package/dist/store.js.map

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