@knowledgine/cli 0.2.0 → 0.2.1

package/dist/commands/upgrade.js

@@ -1,9 +1,10 @@
 import { resolve } from "path";
 import { existsSync } from "fs";
-import { loadConfig, writeRcConfig, createDatabase, loadSqliteVecExtension, Migrator, KnowledgeRepository, ALL_MIGRATIONS, OnnxEmbeddingProvider, ModelManager, downloadModel, } from "@knowledgine/core";
+import { loadConfig, writeRcConfig, resolveDefaultPath, createDatabase, loadSqliteVecExtension, Migrator, KnowledgeRepository, ALL_MIGRATIONS, OnnxEmbeddingProvider, ModelManager, DEFAULT_MODEL_NAME, downloadModel, } from "@knowledgine/core";
 import { createProgress } from "../lib/progress.js";
+import { colors, symbols, createBox } from "../lib/ui/index.js";
 export async function upgradeCommand(options) {
-    const rootPath = resolve(options.path ?? process.cwd());
+    const rootPath = resolveDefaultPath(options.path);
     if (!options.semantic) {
         console.error("Usage: knowledgine upgrade --semantic");
         console.error("");
@@ -14,20 +15,60 @@ export async function upgradeCommand(options) {
     // Check initialization
     const knowledgineDir = resolve(rootPath, ".knowledgine");
     if (!existsSync(knowledgineDir)) {
-        console.error(`Error: Not initialized. Run 'knowledgine init --path ${rootPath}' first.`);
+        console.error(colors.error(`Error: Not initialized. Run 'knowledgine init --path ${rootPath}' first.`));
         process.exitCode = 1;
         return;
     }
     const config = loadConfig(rootPath);
     config.embedding.enabled = true;
     const db = createDatabase(config.dbPath);
-    await loadSqliteVecExtension(db);
+    const vecLoaded = await loadSqliteVecExtension(db);
     new Migrator(db, ALL_MIGRATIONS).migrate();
+    // Ensure vec0 virtual table exists and is populated
+    if (vecLoaded) {
+        // Create vec table if it doesn't exist
+        try {
+            db.prepare("SELECT COUNT(*) FROM note_embeddings_vec").get();
+        }
+        catch {
+            db.exec(`
+        CREATE VIRTUAL TABLE IF NOT EXISTS note_embeddings_vec USING vec0(
+          note_id INTEGER PRIMARY KEY,
+          embedding FLOAT[384]
+        );
+        CREATE TRIGGER IF NOT EXISTS note_embeddings_ad AFTER DELETE ON note_embeddings BEGIN
+          DELETE FROM note_embeddings_vec WHERE note_id = old.note_id;
+        END;
+      `);
+        }
+        // Backfill: sync embeddings that exist in note_embeddings but not in note_embeddings_vec
+        const vecCount = db.prepare("SELECT COUNT(*) as c FROM note_embeddings_vec").get().c;
+        const embCount = db.prepare("SELECT COUNT(*) as c FROM note_embeddings").get().c;
+        if (embCount > 0 && vecCount < embCount) {
+            // Find embeddings missing from vec table
+            const missing = db
+                .prepare(`
+        SELECT e.note_id, e.embedding FROM note_embeddings e
+        WHERE e.note_id NOT IN (SELECT note_id FROM note_embeddings_vec)
+      `)
+                .all();
+            if (missing.length > 0) {
+                const insert = db.prepare("INSERT INTO note_embeddings_vec (note_id, embedding) VALUES (CAST(? AS INTEGER), ?)");
+                const tx = db.transaction(() => {
+                    for (const row of missing) {
+                        insert.run(row.note_id, row.embedding);
+                    }
+                });
+                tx();
+                console.error(`Synced ${missing.length} embeddings into vector index.`);
+            }
+        }
+    }
     const repository = new KnowledgeRepository(db);
     // Download model
     const modelManager = new ModelManager();
     if (!modelManager.isModelAvailable()) {
-        console.error("Downloading embedding model (~23MB)...");
+        console.error(colors.info("Downloading embedding model (~23MB)..."));
         try {
             await downloadModel(modelManager, {
                 onProgress: (progress) => {
@@ -38,26 +79,29 @@ export async function upgradeCommand(options) {
                     }
                 },
                 onFileComplete: (file) => {
-                    process.stderr.write(`\r  [done] ${file}          \n`);
+                    process.stderr.write(`\r  ${symbols.success} ${file}          \n`);
                 },
             });
-            console.error("Model download complete.");
+            console.error(`${symbols.success} ${colors.success("Model download complete.")}`);
         }
         catch (error) {
-            console.error(`\nModel download failed: ${error instanceof Error ? error.message : String(error)}`);
-            console.error("Semantic search upgrade aborted.");
+            console.error(colors.error(`\nModel download failed: ${error instanceof Error ? error.message : String(error)}`));
+            console.error(colors.error("Semantic search upgrade aborted."));
             db.close();
             process.exitCode = 1;
             return;
         }
     }
     else {
-        console.error("Embedding model already available.");
+        console.error(`${symbols.success} ${colors.success("Embedding model already available.")}`);
     }
     // Generate embeddings for notes that don't have them
-    const embeddingProvider = new OnnxEmbeddingProvider(undefined, modelManager);
+    const embeddingProvider = new OnnxEmbeddingProvider(DEFAULT_MODEL_NAME, modelManager);
     const notesWithout = repository.getNotesWithoutEmbeddings();
     if (notesWithout.length > 0) {
+        // Warm up the ONNX session (first call is slow due to model loading)
+        console.error(colors.info("\nLoading embedding model..."));
+        await embeddingProvider.embed("warmup");
         console.error("");
         const embProgress = createProgress(notesWithout.length, "Generating embeddings");
         let generated = 0;
@@ -74,18 +118,20 @@ export async function upgradeCommand(options) {
             }
         }
         embProgress.finish();
-        console.error(`  Generated: ${generated}, Failed: ${failed}`);
+        console.error(`  ${symbols.success} ${colors.success(`Generated: ${generated}`)}, Failed: ${failed}`);
     }
     else {
-        console.error("All notes already have embeddings.");
+        console.error(`${symbols.success} ${colors.success("All notes already have embeddings.")}`);
     }
     // Write .knowledginerc.json
     writeRcConfig(rootPath, { semantic: true });
-    console.error("");
-    console.error("Semantic search enabled successfully.");
-    console.error("  Config: .knowledginerc.json written (semantic: true)");
-    console.error("");
-    console.error("Restart the MCP server to activate semantic search.");
+    console.error("\n" +
+        createBox([
+            `${symbols.success} ${colors.success("Semantic search enabled")}`,
+            `  Config: .knowledginerc.json written`,
+            "",
+            `${symbols.arrow} ${colors.hint("Restart MCP server to activate.")}`,
+        ].join("\n"), { title: "Upgrade Complete", type: "success" }));
     db.close();
 }
 //# sourceMappingURL=upgrade.js.map

package/dist/commands/upgrade.js.map

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

@@ -8,11 +8,12 @@ import { statusCommand } from "./commands/status.js";
 import { upgradeCommand } from "./commands/upgrade.js";
 import { ingestCommand } from "./commands/ingest.js";
 import { pluginsListCommand, pluginsStatusCommand } from "./commands/plugins.js";
-import { feedbackListCommand, feedbackApplyCommand, feedbackDismissCommand, feedbackStatsCommand, } from "./commands/feedback.js";
+import { feedbackListCommand, feedbackApplyCommand, feedbackDismissCommand, feedbackStatsCommand, feedbackReportCommand, } from "./commands/feedback.js";
 import { demoCommand } from "./commands/demo.js";
 import { searchCommand } from "./commands/search.js";
-import { captureCommand } from "./commands/capture.js";
+import { captureAddCommand, captureListCommand, captureDeleteCommand } from "./commands/capture.js";
 import { registerToolCommands } from "./commands/tool.js";
+import { createOutputErrorHandler } from "./lib/unknown-command-handler.js";
 const program = new Command();
 program
     .name("knowledgine")
@@ -54,13 +55,14 @@ Example:
 program
     .command("setup")
     .description("Generate MCP configuration for AI tools")
-    .option("--target <tool>", "Target AI tool (claude-desktop, cursor)")
+    .option("--target <tool>", "Target AI tool (claude-desktop, cursor, claude-code)")
     .option("--path <dir>", "Root directory of indexed notes")
     .option("--write", "Write configuration to file (default: dry-run)")
     .addHelpText("after", `
 Examples:
   knowledgine setup --target claude-desktop --path ~/notes
-  knowledgine setup --target cursor --path ~/notes --write`)
+  knowledgine setup --target cursor --path ~/notes --write
+  knowledgine setup --target claude-code --path ~/notes`)
     .action(setupCommand);
 program
     .command("status")
@@ -86,22 +88,23 @@ program
     .option("--path <dir>", "Root directory")
     .option("--full", "Force full re-ingest (ignore cursor)")
     .option("--all", "Run all registered plugins")
+    .option("--repo <owner/repo>", "GitHub repository (required for --source github)")
+    .addHelpText("after", `
+Examples:
+  knowledgine ingest --source markdown --path ~/notes
+  knowledgine ingest --source github --repo owner/repo --path ~/notes
+  knowledgine ingest --source claude-sessions --path ~/notes
+  knowledgine ingest --all --path ~/notes
+  knowledgine ingest --source markdown --full --path ~/notes`)
     .action(ingestCommand);
-const pluginsCmd = program
-    .command("plugins")
-    .description("Manage ingest plugins");
-pluginsCmd
-    .command("list")
-    .description("List registered plugins")
-    .action(pluginsListCommand);
+const pluginsCmd = program.command("plugins").description("Manage ingest plugins");
+pluginsCmd.command("list").description("List registered plugins").action(pluginsListCommand);
 pluginsCmd
     .command("status")
     .option("--path <dir>", "Root directory")
     .description("Show plugin ingest status")
     .action(pluginsStatusCommand);
-const feedbackCmd = program
-    .command("feedback")
-    .description("Manage extraction feedback");
+const feedbackCmd = program.command("feedback").description("Manage extraction feedback");
 feedbackCmd
     .command("list")
     .description("List feedback records")
@@ -123,6 +126,16 @@ feedbackCmd
     .description("Show feedback statistics")
     .option("--path <dir>", "Root directory")
     .action(feedbackStatsCommand);
+feedbackCmd
+    .command("report")
+    .description("Report an entity extraction error")
+    .requiredOption("--entity <name>", "Entity name")
+    .requiredOption("--type <errorType>", "Error type: false_positive, wrong_type, missed_entity")
+    .option("--entity-type <type>", "Current entity type")
+    .option("--correct-type <type>", "Correct entity type (for wrong_type)")
+    .option("--details <text>", "Additional details")
+    .option("--path <dir>", "Root directory")
+    .action(feedbackReportCommand);
 program
     .command("demo")
     .description("Show demo usage information or clean up demo files")
@@ -149,8 +162,9 @@ program
         path: opts.path,
     });
 });
-program
-    .command("capture [text]")
+const captureCmd = program.command("capture").description("Capture and manage knowledge snippets");
+captureCmd
+    .command("add [text]")
     .description("Capture knowledge from text, URL, or file")
     .option("-u, --url <url>", "URL to fetch and capture")
     .option("-f, --file <path>", "File path to capture")
@@ -158,7 +172,27 @@ program
     .option("--title <title>", "Title for the captured knowledge")
     .option("--path <dir>", "Root directory")
     .option("--format <format>", "Output format: json, plain", "plain")
-    .action(captureCommand);
+    .action(captureAddCommand);
+captureCmd
+    .command("list")
+    .description("List captured notes")
+    .option("--path <dir>", "Root directory")
+    .option("--format <format>", "Output format: json, plain", "plain")
+    .action(captureListCommand);
+captureCmd
+    .command("delete <id>")
+    .description("Delete a captured note")
+    .option("--path <dir>", "Root directory")
+    .action(captureDeleteCommand);
 registerToolCommands(program);
+program.showSuggestionAfterError(true);
+program.configureOutput({
+    outputError: createOutputErrorHandler(() => program.commands.map((c) => c.name())),
+});
+// Global error handler for unhandled exceptions (e.g., native module errors)
+process.on("uncaughtException", (error) => {
+    console.error(`Error: ${error.message}`);
+    process.exit(1);
+});
 program.parse();
 //# sourceMappingURL=index.js.map

package/dist/index.js.map

@@ -1 +1 @@
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package/dist/lib/entity-extractor.d.ts

@@ -0,0 +1,15 @@
+import { KnowledgeRepository, GraphRepository } from "@knowledgine/core";
+export interface PostIngestSummary {
+    totalNotes: number;
+    processedNotes: number;
+    totalEntities: number;
+    totalRelations: number;
+    totalPatterns: number;
+    errors: number;
+}
+/**
+ * 全ノートに対してパターン抽出、エンティティ抽出、関係推論をバッチ実行する。
+ * init コマンドから ingest パイプライン経由でノートが保存された後に呼ばれる。
+ */
+export declare function postIngestProcessing(repository: KnowledgeRepository, graphRepository: GraphRepository, onProgress?: (current: number, total: number) => void): Promise<PostIngestSummary>;
+//# sourceMappingURL=entity-extractor.d.ts.map

package/dist/lib/entity-extractor.d.ts.map

@@ -0,0 +1 @@
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package/dist/lib/entity-extractor.js

@@ -0,0 +1,86 @@
+import { KnowledgeRepository, GraphRepository, EntityExtractor, RelationInferrer, PatternExtractor, } from "@knowledgine/core";
+/**
+ * Deduplicate patterns by (type, lineNumber, content) key.
+ */
+function deduplicatePatterns(patterns) {
+    const seen = new Set();
+    const result = [];
+    for (const p of patterns) {
+        const key = JSON.stringify([p.type, p.lineNumber ?? null, p.content]);
+        if (!seen.has(key)) {
+            seen.add(key);
+            result.push(p);
+        }
+    }
+    return result;
+}
+/**
+ * 全ノートに対してパターン抽出、エンティティ抽出、関係推論をバッチ実行する。
+ * init コマンドから ingest パイプライン経由でノートが保存された後に呼ばれる。
+ */
+export async function postIngestProcessing(repository, graphRepository, onProgress) {
+    const notes = repository.getAllNotes();
+    const patternExtractor = new PatternExtractor();
+    const entityExtractor = new EntityExtractor();
+    const inferrer = new RelationInferrer();
+    let processedNotes = 0;
+    let totalEntities = 0;
+    let totalRelations = 0;
+    let totalPatterns = 0;
+    let errors = 0;
+    for (const note of notes) {
+        try {
+            const frontmatter = note.frontmatter_json ? JSON.parse(note.frontmatter_json) : {};
+            const now = new Date().toISOString();
+            // Pattern extraction
+            const dailyPatterns = patternExtractor.extractDailyPatterns(note.content);
+            const ticketPatterns = patternExtractor.extractTicketPatterns(note.content);
+            const allPatterns = deduplicatePatterns([...dailyPatterns, ...ticketPatterns]);
+            repository.savePatterns(note.id, allPatterns);
+            totalPatterns += allPatterns.length;
+            // Entity extraction
+            const extractedEntities = entityExtractor.extract(note.content, frontmatter);
+            const entityList = [];
+            for (const entity of extractedEntities) {
+                const entityId = graphRepository.upsertEntity({
+                    name: entity.name,
+                    entityType: entity.entityType,
+                    createdAt: now,
+                });
+                graphRepository.linkEntityToNote(entityId, note.id);
+                entityList.push({ name: entity.name, entityType: entity.entityType });
+            }
+            totalEntities += extractedEntities.length;
+            // Relation inference
+            const inferredRelations = inferrer.infer(entityList, frontmatter);
+            for (const rel of inferredRelations) {
+                const fromEntity = graphRepository.getEntityByName(rel.fromName, rel.fromType);
+                const toEntity = graphRepository.getEntityByName(rel.toName, rel.toType);
+                if (fromEntity?.id && toEntity?.id) {
+                    graphRepository.upsertRelation({
+                        fromEntityId: fromEntity.id,
+                        toEntityId: toEntity.id,
+                        relationType: rel.relationType,
+                        strength: rel.strength,
+                        createdAt: now,
+                    });
+                    totalRelations++;
+                }
+            }
+            processedNotes++;
+            onProgress?.(processedNotes, notes.length);
+        }
+        catch {
+            errors++;
+        }
+    }
+    return {
+        totalNotes: notes.length,
+        processedNotes,
+        totalEntities,
+        totalRelations,
+        totalPatterns,
+        errors,
+    };
+}
+//# sourceMappingURL=entity-extractor.js.map

package/dist/lib/entity-extractor.js.map

@@ -0,0 +1 @@
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package/dist/lib/formatter.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"formatter.d.ts","sourceRoot":"","sources":["../../src/lib/formatter.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EACV,qBAAqB,EACrB,iBAAiB,EACjB,WAAW,EACX,oBAAoB,EACrB,MAAM,mBAAmB,CAAC;AAG3B,MAAM,MAAM,YAAY,GAAG,MAAM,GAAG,OAAO,GAAG,OAAO,CAAC;AAEtD,wBAAgB,mBAAmB,CACjC,OAAO,EAAE,qBAAqB,CAAC,SAAS,CAAC,EACzC,MAAM,EAAE,YAAY,GACnB,MAAM,CAeR;AAED,wBAAgB,kBAAkB,CAAC,MAAM,EAAE,iBAAiB,EAAE,MAAM,EAAE,YAAY,GAAG,MAAM,CAsB1F;AAED,wBAAgB,WAAW,CAAC,KAAK,EAAE,WAAW,EAAE,MAAM,EAAE,YAAY,GAAG,MAAM,CAgC5E;AAED,wBAAgB,cAAc,CAAC,MAAM,EAAE,oBAAoB,EAAE,MAAM,EAAE,YAAY,GAAG,MAAM,CAiBzF"}

package/dist/lib/formatter.js

@@ -1,3 +1,4 @@
+import { createTable, colors, scoreColor } from "./ui/index.js";
 export function formatSearchResults(results, format) {
     if (format === "json") {
         return JSON.stringify(results, null, 2);
@@ -8,10 +9,12 @@ export function formatSearchResults(results, format) {
     // table
     if (results.length === 0)
         return "";
-    const header = `${"Score".padEnd(7)}${"Title".padEnd(40)}FilePath`;
-    const sep = "-".repeat(header.length);
-    const rows = results.map((r) => `${r.score.toFixed(2).padEnd(7)}${r.title.slice(0, 38).padEnd(40)}${r.filePath}`);
-    return [header, sep, ...rows].join("\n");
+    const rows = results.map((r) => [
+        scoreColor(r.score)(r.score.toFixed(2)),
+        r.title,
+        colors.dim(r.filePath),
+    ]);
+    return createTable({ head: ["Score", "Title", "File"], rows });
 }
 export function formatRelatedNotes(result, format) {
     if (format === "json") {
@@ -25,19 +28,16 @@ export function formatRelatedNotes(result, format) {
         return lines.join("\n");
     }
     // table
-    const lines = [`Related notes for noteId=${result.noteId}:`];
-    if (result.relatedNotes.length > 0) {
-        const header = `  ${"Score".padEnd(7)}${"Title".padEnd(40)}FilePath`;
-        lines.push(header);
-        lines.push("  " + "-".repeat(header.length - 2));
-        for (const n of result.relatedNotes) {
-            lines.push(`  ${n.score.toFixed(2).padEnd(7)}${n.title.slice(0, 38).padEnd(40)}${n.filePath}`);
-        }
-    }
-    else {
-        lines.push("  (no related notes found)");
+    const header = `Related notes for noteId=${result.noteId}:`;
+    if (result.relatedNotes.length === 0) {
+        return `${header}\n  (no related notes found)`;
     }
-    return lines.join("\n");
+    const rows = result.relatedNotes.map((n) => [
+        scoreColor(n.score)(n.score.toFixed(2)),
+        n.title,
+        colors.dim(n.filePath),
+    ]);
+    return `${header}\n${createTable({ head: ["Score", "Title", "File"], rows })}`;
 }
 export function formatStats(stats, format) {
     if (format === "json") {
@@ -53,23 +53,24 @@ export function formatStats(stats, format) {
         ].join("\n");
     }
     // table
-    const lines = [
-        `${"Metric".padEnd(30)}Value`,
-        "-".repeat(50),
-        `${"Total Notes".padEnd(30)}${stats.totalNotes}`,
-        `${"Total Patterns".padEnd(30)}${stats.totalPatterns}`,
-        `${"Total Links".padEnd(30)}${stats.totalLinks}`,
-        `${"Total Pairs".padEnd(30)}${stats.totalPairs}`,
-        `${"Embeddings Available".padEnd(30)}${stats.embeddingStatus.available}`,
+    const rows = [
+        ["Total Notes", colors.info(String(stats.totalNotes))],
+        ["Total Patterns", colors.info(String(stats.totalPatterns))],
+        ["Total Links", colors.info(String(stats.totalLinks))],
+        ["Total Pairs", colors.info(String(stats.totalPairs))],
+        ["Embeddings Available", colors.info(String(stats.embeddingStatus.available))],
     ];
     if (stats.embeddingStatus.notesWithoutEmbeddings !== null) {
-        lines.push(`${"Notes Without Embeddings".padEnd(30)}${stats.embeddingStatus.notesWithoutEmbeddings}`);
+        rows.push([
+            "Notes Without Embeddings",
+            colors.info(String(stats.embeddingStatus.notesWithoutEmbeddings)),
+        ]);
     }
     if (stats.graphStats) {
-        lines.push(`${"Graph Entities".padEnd(30)}${stats.graphStats.totalEntities}`);
-        lines.push(`${"Graph Relations".padEnd(30)}${stats.graphStats.totalRelations}`);
+        rows.push(["Graph Entities", colors.info(String(stats.graphStats.totalEntities))]);
+        rows.push(["Graph Relations", colors.info(String(stats.graphStats.totalRelations))]);
     }
-    return lines.join("\n");
+    return createTable({ head: ["Metric", "Value"], rows });
 }
 export function formatEntities(result, format) {
     if (format === "json") {
@@ -83,9 +84,11 @@ export function formatEntities(result, format) {
     // table
     if (result.entities.length === 0)
         return "";
-    const header = `${"ID".padEnd(6)}${"Type".padEnd(15)}${"Name".padEnd(30)}Description`;
-    const sep = "-".repeat(header.length);
-    const rows = result.entities.map((e) => `${String(e.id).padEnd(6)}${e.entityType.padEnd(15)}${e.name.slice(0, 28).padEnd(30)}${e.description ?? ""}`);
-    return [header, sep, ...rows].join("\n");
+    const rows = result.entities.map((e) => [
+        String(e.id),
+        colors.accent(e.entityType),
+        e.name,
+    ]);
+    return createTable({ head: ["ID", "Type", "Name"], rows });
 }
 //# sourceMappingURL=formatter.js.map

package/dist/lib/formatter.js.map

@@ -1 +1 @@
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+{"version":3,"file":"formatter.js","sourceRoot":"","sources":["../../src/lib/formatter.ts"],"names":[],"mappings":"AAMA,OAAO,EAAE,WAAW,EAAE,MAAM,EAAE,UAAU,EAAE,MAAM,eAAe,CAAC;AAIhE,MAAM,UAAU,mBAAmB,CACjC,OAAyC,EACzC,MAAoB;IAEpB,IAAI,MAAM,KAAK,MAAM,EAAE,CAAC;QACtB,OAAO,IAAI,CAAC,SAAS,CAAC,OAAO,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC;IAC1C,CAAC;IACD,IAAI,MAAM,KAAK,OAAO,EAAE,CAAC;QACvB,OAAO,OAAO,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,IAAI,CAAC,CAAC,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,QAAQ,KAAK,CAAC,CAAC,KAAK,EAAE,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;IAC5F,CAAC;IACD,QAAQ;IACR,IAAI,OAAO,CAAC,MAAM,KAAK,CAAC;QAAE,OAAO,EAAE,CAAC;IACpC,MAAM,IAAI,GAAG,OAAO,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC;QAC9B,UAAU,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC;QACvC,CAAC,CAAC,KAAK;QACP,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,QAAQ,CAAC;KACvB,CAAC,CAAC;IACH,OAAO,WAAW,CAAC,EAAE,IAAI,EAAE,CAAC,OAAO,EAAE,OAAO,EAAE,MAAM,CAAC,EAAE,IAAI,EAAE,CAAC,CAAC;AACjE,CAAC;AAED,MAAM,UAAU,kBAAkB,CAAC,MAAyB,EAAE,MAAoB;IAChF,IAAI,MAAM,KAAK,MAAM,EAAE,CAAC;QACtB,OAAO,IAAI,CAAC,SAAS,CAAC,MAAM,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC;IACzC,CAAC;IACD,IAAI,MAAM,KAAK,OAAO,EAAE,CAAC;QACvB,MAAM,KAAK,GAAa,CAAC,YAAY,MAAM,CAAC,MAAM,EAAE,CAAC,CAAC;QACtD,KAAK,MAAM,CAAC,IAAI,MAAM,CAAC,YAAY,EAAE,CAAC;YACpC,KAAK,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,QAAQ,KAAK,CAAC,CAAC,KAAK,EAAE,CAAC,CAAC;QACpE,CAAC;QACD,OAAO,KAAK,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;IAC1B,CAAC;IACD,QAAQ;IACR,MAAM,MAAM,GAAG,4BAA4B,MAAM,CAAC,MAAM,GAAG,CAAC;IAC5D,IAAI,MAAM,CAAC,YAAY,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;QACrC,OAAO,GAAG,MAAM,8BAA8B,CAAC;IACjD,CAAC;IACD,MAAM,IAAI,GAAG,MAAM,CAAC,YAAY,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC;QAC1C,UAAU,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC;QACvC,CAAC,CAAC,KAAK;QACP,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,QAAQ,CAAC;KACvB,CAAC,CAAC;IACH,OAAO,GAAG,MAAM,KAAK,WAAW,CAAC,EAAE,IAAI,EAAE,CAAC,OAAO,EAAE,OAAO,EAAE,MAAM,CAAC,EAAE,IAAI,EAAE,CAAC,EAAE,CAAC;AACjF,CAAC;AAED,MAAM,UAAU,WAAW,CAAC,KAAkB,EAAE,MAAoB;IAClE,IAAI,MAAM,KAAK,MAAM,EAAE,CAAC;QACtB,OAAO,IAAI,CAAC,SAAS,CAAC,KAAK,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC;IACxC,CAAC;IACD,IAAI,MAAM,KAAK,OAAO,EAAE,CAAC;QACvB,OAAO;YACL,UAAU,KAAK,CAAC,UAAU,EAAE;YAC5B,aAAa,KAAK,CAAC,aAAa,EAAE;YAClC,UAAU,KAAK,CAAC,UAAU,EAAE;YAC5B,UAAU,KAAK,CAAC,UAAU,EAAE;YAC5B,eAAe,KAAK,CAAC,eAAe,CAAC,SAAS,CAAC,CAAC,CAAC,SAAS,CAAC,CAAC,CAAC,UAAU,EAAE;SAC1E,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;IACf,CAAC;IACD,QAAQ;IACR,MAAM,IAAI,GAAe;QACvB,CAAC,aAAa,EAAE,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,UAAU,CAAC,CAAC,CAAC;QACtD,CAAC,gBAAgB,EAAE,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,aAAa,CAAC,CAAC,CAAC;QAC5D,CAAC,aAAa,EAAE,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,UAAU,CAAC,CAAC,CAAC;QACtD,CAAC,aAAa,EAAE,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,UAAU,CAAC,CAAC,CAAC;QACtD,CAAC,sBAAsB,EAAE,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,eAAe,CAAC,SAAS,CAAC,CAAC,CAAC;KAC/E,CAAC;IACF,IAAI,KAAK,CAAC,eAAe,CAAC,sBAAsB,KAAK,IAAI,EAAE,CAAC;QAC1D,IAAI,CAAC,IAAI,CAAC;YACR,0BAA0B;YAC1B,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,eAAe,CAAC,sBAAsB,CAAC,CAAC;SAClE,CAAC,CAAC;IACL,CAAC;IACD,IAAI,KAAK,CAAC,UAAU,EAAE,CAAC;QACrB,IAAI,CAAC,IAAI,CAAC,CAAC,gBAAgB,EAAE,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,UAAU,CAAC,aAAa,CAAC,CAAC,CAAC,CAAC,CAAC;QACnF,IAAI,CAAC,IAAI,CAAC,CAAC,iBAAiB,EAAE,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,UAAU,CAAC,cAAc,CAAC,CAAC,CAAC,CAAC,CAAC;IACvF,CAAC;IACD,OAAO,WAAW,CAAC,EAAE,IAAI,EAAE,CAAC,QAAQ,EAAE,OAAO,CAAC,EAAE,IAAI,EAAE,CAAC,CAAC;AAC1D,CAAC;AAED,MAAM,UAAU,cAAc,CAAC,MAA4B,EAAE,MAAoB;IAC/E,IAAI,MAAM,KAAK,MAAM,EAAE,CAAC;QACtB,OAAO,IAAI,CAAC,SAAS,CAAC,MAAM,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC;IACzC,CAAC;IACD,IAAI,MAAM,KAAK,OAAO,EAAE,CAAC;QACvB,OAAO,MAAM,CAAC,QAAQ;aACnB,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,IAAI,CAAC,CAAC,UAAU,KAAK,CAAC,CAAC,IAAI,GAAG,CAAC,CAAC,WAAW,CAAC,CAAC,CAAC,IAAI,GAAG,CAAC,CAAC,WAAW,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC;aACrF,IAAI,CAAC,IAAI,CAAC,CAAC;IAChB,CAAC;IACD,QAAQ;IACR,IAAI,MAAM,CAAC,QAAQ,CAAC,MAAM,KAAK,CAAC;QAAE,OAAO,EAAE,CAAC;IAC5C,MAAM,IAAI,GAAG,MAAM,CAAC,QAAQ,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC;QACtC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC;QACZ,MAAM,CAAC,MAAM,CAAC,CAAC,CAAC,UAAU,CAAC;QAC3B,CAAC,CAAC,IAAI;KACP,CAAC,CAAC;IACH,OAAO,WAAW,CAAC,EAAE,IAAI,EAAE,CAAC,IAAI,EAAE,MAAM,EAAE,MAAM,CAAC,EAAE,IAAI,EAAE,CAAC,CAAC;AAC7D,CAAC"}

package/dist/lib/indexer.d.ts

@@ -13,9 +13,11 @@ export interface IndexFileResult {
     noteId: number;
     patternCount: number;
 }
+/** @deprecated Use IngestEngine with MarkdownPlugin instead */
 export declare function indexFile(relativePath: string, rootPath: string, fileProcessor: FileProcessor, patternExtractor: PatternExtractor, repository: KnowledgeRepository, graphRepository?: GraphRepository): Promise<number>;
 export interface IndexAllOptions {
     onProgress?: (current: number, total: number, filePath: string) => void;
 }
+/** @deprecated Use IngestEngine with MarkdownPlugin instead */
 export declare function indexAll(rootPath: string, repository: KnowledgeRepository, graphRepository?: GraphRepository, options?: IndexAllOptions): Promise<IndexSummary>;
 //# sourceMappingURL=indexer.d.ts.map

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

@@ -1 +1 @@
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+{"version":3,"file":"indexer.d.ts","sourceRoot":"","sources":["../../src/lib/indexer.ts"],"names":[],"mappings":"AAEA,OAAO,EACL,aAAa,EACb,gBAAgB,EAChB,mBAAmB,EAGnB,eAAe,EAChB,MAAM,mBAAmB,CAAC;AAC3B,OAAO,KAAK,EAAE,gBAAgB,EAAE,MAAM,mBAAmB,CAAC;AAE1D,MAAM,WAAW,YAAY;IAC3B,UAAU,EAAE,MAAM,CAAC;IACnB,cAAc,EAAE,MAAM,CAAC;IACvB,aAAa,EAAE,MAAM,CAAC;IACtB,SAAS,EAAE,MAAM,CAAC;IAClB,MAAM,EAAE,MAAM,EAAE,CAAC;CAClB;AAED,wBAAsB,qBAAqB,CAAC,QAAQ,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,EAAE,CAAC,CAU/E;AAED,wBAAgB,mBAAmB,CAAC,QAAQ,EAAE,gBAAgB,EAAE,GAAG,gBAAgB,EAAE,CAWpF;AAED,MAAM,WAAW,eAAe;IAC9B,MAAM,EAAE,MAAM,CAAC;IACf,YAAY,EAAE,MAAM,CAAC;CACtB;AAED,+DAA+D;AAC/D,wBAAsB,SAAS,CAC7B,YAAY,EAAE,MAAM,EACpB,QAAQ,EAAE,MAAM,EAChB,aAAa,EAAE,aAAa,EAC5B,gBAAgB,EAAE,gBAAgB,EAClC,UAAU,EAAE,mBAAmB,EAC/B,eAAe,CAAC,EAAE,eAAe,GAChC,OAAO,CAAC,MAAM,CAAC,CA+DjB;AAED,MAAM,WAAW,eAAe;IAC9B,UAAU,CAAC,EAAE,CAAC,OAAO,EAAE,MAAM,EAAE,KAAK,EAAE,MAAM,EAAE,QAAQ,EAAE,MAAM,KAAK,IAAI,CAAC;CACzE;AAED,+DAA+D;AAC/D,wBAAsB,QAAQ,CAC5B,QAAQ,EAAE,MAAM,EAChB,UAAU,EAAE,mBAAmB,EAC/B,eAAe,CAAC,EAAE,eAAe,EACjC,OAAO,CAAC,EAAE,eAAe,GACxB,OAAO,CAAC,YAAY,CAAC,CA4BvB"}

package/dist/lib/indexer.js

@@ -25,6 +25,7 @@ export function deduplicatePatterns(patterns) {
     }
     return result;
 }
+/** @deprecated Use IngestEngine with MarkdownPlugin instead */
 export async function indexFile(relativePath, rootPath, fileProcessor, patternExtractor, repository, graphRepository) {
     const absolutePath = join(rootPath, relativePath);
     const processed = await fileProcessor.processFile(absolutePath);
@@ -80,6 +81,7 @@ export async function indexFile(relativePath, rootPath, fileProcessor, patternEx
     }
     return noteId;
 }
+/** @deprecated Use IngestEngine with MarkdownPlugin instead */
 export async function indexAll(rootPath, repository, graphRepository, options) {
     const start = Date.now();
     const fileProcessor = new FileProcessor();