@codified/cli 0.3.9 → 0.4.0

package/dist/commands/search.js

@@ -1,6 +1,7 @@
 // codify search — search the context graph from the terminal
+// Supports hybrid search: ILIKE keyword + pgvector semantic when VOYAGE_API_KEY is set
 import { Command } from "commander";
-import { loadProjectConfig } from "../lib/config.js";
+import { loadProjectConfig, getProjectId } from "../lib/config.js";
 // --- Color helpers (ANSI escape codes) ---
 const RESET = "\x1b[0m";
 const BOLD = "\x1b[1m";
@@ -36,6 +37,59 @@ function truncate(str, maxLen) {
         return str;
     return str.slice(0, maxLen - 3) + "...";
 }
+// --- Reciprocal Rank Fusion ---
+function reciprocalRankFusion(keywordResults, vectorResults, k = 60) {
+    const scores = new Map();
+    keywordResults.forEach((r, i) => {
+        const existing = scores.get(r.id);
+        const rrf = 1 / (k + i + 1);
+        if (existing) {
+            existing.score += rrf;
+        }
+        else {
+            scores.set(r.id, { score: rrf, data: r });
+        }
+    });
+    vectorResults.forEach((r, i) => {
+        const existing = scores.get(r.id);
+        const rrf = 1 / (k + i + 1);
+        if (existing) {
+            existing.score += rrf;
+        }
+        else {
+            scores.set(r.id, { score: rrf, data: r });
+        }
+    });
+    return [...scores.values()]
+        .sort((a, b) => b.score - a.score)
+        .map(({ score, data }) => ({ ...data, score }));
+}
+// --- Voyage AI embedding helper ---
+async function generateQueryEmbedding(query) {
+    const apiKey = process.env.VOYAGE_API_KEY;
+    if (!apiKey)
+        return null;
+    try {
+        const response = await fetch("https://api.voyageai.com/v1/embeddings", {
+            method: "POST",
+            headers: {
+                "Content-Type": "application/json",
+                Authorization: `Bearer ${apiKey}`,
+            },
+            body: JSON.stringify({
+                input: [query],
+                model: "voyage-3-lite",
+            }),
+        });
+        if (!response.ok)
+            return null;
+        const data = (await response.json());
+        return data.data?.[0]?.embedding ?? null;
+    }
+    catch {
+        return null;
+    }
+}
 // --- Valid node types ---
 const VALID_TYPES = [
     "Decision", "Feature", "Metric", "CustomerSignal",
@@ -49,6 +103,7 @@ export const searchCommand = new Command("search")
     .option("--limit <n>", "Maximum results to show", "10")
     .option("--freshness <min>", "Minimum freshness threshold (0.0-1.0)")
     .option("--json", "Output raw JSON for piping")
+    .option("--all-projects", "Search across all projects")
     .action(async (queryStr, opts) => {
     try {
         await loadProjectConfig();
@@ -81,47 +136,133 @@ export const searchCommand = new Command("search")
                 process.exit(1);
             }
         }
-        // Build query — split keywords, ILIKE against properties::text and metadata::text
+        const allProjects = !!opts.allProjects;
+        const projectId = allProjects ? null : getProjectId();
+        // --- Check if hybrid search is available ---
+        let useHybrid = false;
+        if (process.env.VOYAGE_API_KEY) {
+            const embeddingCheck = await pool.query(allProjects
+                ? "SELECT COUNT(*)::int as count FROM nodes WHERE embedding IS NOT NULL LIMIT 1"
+                : "SELECT COUNT(*)::int as count FROM nodes WHERE embedding IS NOT NULL AND project_id = $1 LIMIT 1", allProjects ? [] : [projectId]);
+            useHybrid = (embeddingCheck.rows[0]?.count ?? 0) > 0;
+        }
+        // --- ILIKE keyword search ---
         const conditions = [
-            "superseded_by IS NULL",
-            "layer = ANY($1)",
+            "n.superseded_by IS NULL",
+            "n.layer = ANY($1)",
         ];
         const params = [["permanent", "draft", "hot"]];
         let paramIdx = 2;
+        if (!allProjects) {
+            conditions.push(`n.project_id = $${paramIdx++}`);
+            params.push(projectId);
+        }
         // Keyword search: split query into words, match any keyword
         const keywords = queryStr.split(/\s+/).filter((w) => w.length > 1);
         if (keywords.length > 0) {
             const keywordConditions = keywords.map((kw) => {
                 params.push(`%${kw}%`);
                 const idx = paramIdx++;
-                return `(properties::text ILIKE $${idx} OR metadata::text ILIKE $${idx} OR $${idx} = ANY(tags))`;
+                return `(n.properties::text ILIKE $${idx} OR n.metadata::text ILIKE $${idx} OR $${idx} = ANY(n.tags))`;
             });
             conditions.push(`(${keywordConditions.join(" OR ")})`);
         }
         if (opts.type) {
-            conditions.push(`type = $${paramIdx++}`);
+            conditions.push(`n.type = $${paramIdx++}`);
             params.push(opts.type);
         }
         if (minFreshness !== undefined) {
-            conditions.push(`freshness >= $${paramIdx++}`);
+            conditions.push(`n.freshness >= $${paramIdx++}`);
             params.push(minFreshness);
         }
-        params.push(limit);
-        const sql = `SELECT id, type, properties, metadata, freshness, confidence, tags, layer, created_at, updated_at
-         FROM nodes
+        // For hybrid search, fetch more from ILIKE to feed into RRF
+        const keywordLimit = useHybrid ? 20 : limit;
+        params.push(keywordLimit);
+        const selectCols = allProjects
+            ? `n.id, n.type, n.properties, n.metadata, n.freshness, n.confidence, n.tags, n.layer, n.created_at, n.updated_at, p.name AS project_name`
+            : `n.id, n.type, n.properties, n.metadata, n.freshness, n.confidence, n.tags, n.layer, n.created_at, n.updated_at`;
+        const fromClause = allProjects
+            ? `FROM nodes n LEFT JOIN projects p ON n.project_id = p.id`
+            : `FROM nodes n`;
+        const keywordSql = `SELECT ${selectCols}
+         ${fromClause}
          WHERE ${conditions.join(" AND ")}
-         ORDER BY freshness DESC
+         ORDER BY n.freshness DESC
          LIMIT $${paramIdx}`;
-        const result = await pool.query(sql, params);
-        const nodes = result.rows;
+        const keywordResult = await pool.query(keywordSql, params);
+        const keywordNodes = keywordResult.rows;
+        let nodes;
+        if (useHybrid) {
+            // --- Vector search ---
+            const queryEmbedding = await generateQueryEmbedding(queryStr);
+            if (queryEmbedding) {
+                const vectorConditions = [
+                    "n.superseded_by IS NULL",
+                    "n.embedding IS NOT NULL",
+                ];
+                const vectorParams = [];
+                let vParamIdx = 1;
+                // Embedding as $1
+                vectorParams.push(`[${queryEmbedding.join(",")}]`);
+                vParamIdx++;
+                if (!allProjects) {
+                    vectorConditions.push(`n.project_id = $${vParamIdx++}`);
+                    vectorParams.push(projectId);
+                }
+                if (opts.type) {
+                    vectorConditions.push(`n.type = $${vParamIdx++}`);
+                    vectorParams.push(opts.type);
+                }
+                if (minFreshness !== undefined) {
+                    vectorConditions.push(`n.freshness >= $${vParamIdx++}`);
+                    vectorParams.push(minFreshness);
+                }
+                const vectorSelectCols = allProjects
+                    ? `n.id, n.type, n.properties, n.metadata, n.freshness, n.confidence, n.tags, n.layer, n.created_at, n.updated_at, p.name AS project_name, n.embedding <=> $1::vector AS distance`
+                    : `n.id, n.type, n.properties, n.metadata, n.freshness, n.confidence, n.tags, n.layer, n.created_at, n.updated_at, n.embedding <=> $1::vector AS distance`;
+                const vectorFromClause = allProjects
+                    ? `FROM nodes n LEFT JOIN projects p ON n.project_id = p.id`
+                    : `FROM nodes n`;
+                const vectorSql = `SELECT ${vectorSelectCols}
+            ${vectorFromClause}
+            WHERE ${vectorConditions.join(" AND ")}
+            ORDER BY n.embedding <=> $1::vector
+            LIMIT 20`;
+                const vectorResult = await pool.query(vectorSql, vectorParams);
+                const vectorNodes = vectorResult.rows;
+                // Combine with RRF
+                const fused = reciprocalRankFusion(keywordNodes, vectorNodes);
+                // Apply the user's limit
+                nodes = fused.slice(0, limit);
+            }
+            else {
+                // Embedding generation failed, fall back to keyword-only
+                nodes = keywordNodes.slice(0, limit);
+            }
+        }
+        else {
+            // No hybrid — use keyword results as-is
+            nodes = keywordNodes;
+        }
         // JSON output mode
         if (opts.json) {
-            console.log(JSON.stringify(nodes, null, 2));
+            const output = allProjects
+                ? nodes.map((n) => ({
+                    ...n,
+                    projectName: n.project_name ?? null,
+                    ...(n.score !== undefined ? { score: n.score } : {}),
+                }))
+                : nodes.map((n) => ({
+                    ...n,
+                    ...(n.score !== undefined ? { score: n.score } : {}),
+                }));
+            console.log(JSON.stringify(output, null, 2));
             await closePool();
             return;
         }
         // Pretty output
-        console.log(`\n  ${BOLD}Codify — Search Results${RESET}\n`);
+        const searchMode = useHybrid ? "hybrid" : "keyword";
+        console.log(`\n  ${BOLD}Codify — Search Results${RESET}  ${DIM}(${searchMode})${RESET}\n`);
         if (nodes.length === 0) {
             const filterDesc = [`query="${queryStr}"`];
             if (opts.type)
@@ -147,20 +288,27 @@ export const searchCommand = new Command("search")
                 props.reason ?? props.summary ?? "";
             // Rank number
             const rank = `${DIM}#${i + 1}${RESET}`;
-            // Type badge
+            // Type badge + optional project name
+            const projectBadge = allProjects && node.project_name
+                ? ` ${DIM}[project: ${node.project_name}]${RESET}`
+                : "";
             const typeBadge = `[${typeColor(node.type)}]`;
             // Freshness and confidence
             const fresh = freshnessLabel(node.freshness ?? 0);
             const conf = `${DIM}conf:${(node.confidence ?? 0).toFixed(2)}${RESET}`;
-            console.log(`  ${rank}  ${typeBadge}  ${BOLD}${title}${RESET}`);
-            console.log(`      freshness: ${fresh}  ${conf}  ${DIM}${node.layer}${RESET}`);
+            // RRF score (only in hybrid mode)
+            const scoreBadge = node.score !== undefined
+                ? `  ${DIM}rrf:${node.score.toFixed(4)}${RESET}`
+                : "";
+            console.log(`  ${rank}  ${typeBadge}${projectBadge}  ${BOLD}${title}${RESET}`);
+            console.log(`      freshness: ${fresh}  ${conf}  ${DIM}${node.layer}${RESET}${scoreBadge}`);
             if (description) {
                 console.log(`      ${DIM}${truncate(description, 80)}${RESET}`);
             }
             console.log("");
         }
         // Footer
-        console.log(`  ${DIM}Flags: --type <Type>  --freshness <0.0-1.0>  --limit <n>  --json${RESET}`);
+        console.log(`  ${DIM}Flags: --type <Type>  --freshness <0.0-1.0>  --limit <n>  --json  --all-projects${RESET}`);
         console.log("");
         await closePool();
     }

package/dist/commands/search.js.map

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package/dist/commands/start.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"start.d.ts","sourceRoot":"","sources":["../../src/commands/start.ts"],"names":[],"mappings":"AAEA,OAAO,EAAE,OAAO,EAAE,MAAM,WAAW,CAAC;AAGpC,eAAO,MAAM,YAAY,SAmPrB,CAAC"}
+{"version":3,"file":"start.d.ts","sourceRoot":"","sources":["../../src/commands/start.ts"],"names":[],"mappings":"AAEA,OAAO,EAAE,OAAO,EAAE,MAAM,WAAW,CAAC;AAGpC,eAAO,MAAM,YAAY,SAoVrB,CAAC"}

package/dist/commands/start.js

@@ -11,7 +11,7 @@ export const startCommand = new Command("start")
         // Import app modules dynamically to avoid loading everything at CLI parse time
         const { getPool, closePool } = await import("@codify/graph");
         const { createEventBus } = await import("@codify/events");
-        const { startGapEngine, CollectionPlanner } = await import("@codify/agents");
+        const { startGapEngine, CollectionPlanner, ClaudeEntityExtractor, StructuringPipeline } = await import("@codify/agents");
         const { MetabolismService } = await import("@codify/metabolism");
         const { GraphServiceAdapter } = await import("@codify/app");
         // 1. Connect to PostgreSQL
@@ -37,8 +37,22 @@ export const startCommand = new Command("start")
         const collectionPlanner = new CollectionPlanner(eventBus);
         await collectionPlanner.start();
         // 5b. Auto-collection subscriber: mine graph for evidence when gaps are detected
+        //     After keyword-based evidence linking, also run entity extraction via Claude
+        //     to create properly typed nodes from the evidence text.
         {
             const { collectEvidenceForGap } = await import("./collect.js");
+            // Initialize entity extractor + structuring pipeline (if API key is available)
+            let structuringPipeline = null;
+            if (process.env["ANTHROPIC_API_KEY"]) {
+                try {
+                    const extractor = new ClaudeEntityExtractor();
+                    structuringPipeline = new StructuringPipeline(extractor, eventBus);
+                    console.error("  ✓ Entity extractor ready (Claude-powered)");
+                }
+                catch (err) {
+                    console.error(`[collection] Entity extractor init failed: ${err instanceof Error ? err.message : String(err)}`);
+                }
+            }
             let lastCollectionTime = 0;
             let collectionsThisMinute = 0;
             let minuteStart = Date.now();
@@ -79,6 +93,7 @@ export const startCommand = new Command("start")
                     });
                     if (affectedNodes.length === 0)
                         return;
+                    // Phase 1: Keyword-based evidence linking (existing behavior)
                     const { evidenceNodes, edgesCreated } = await collectEvidenceForGap(pool, ev.gapNodeId, affectedNodes);
                     if (evidenceNodes.length > 0) {
                         // Update gap status to evidence_found
@@ -92,6 +107,63 @@ export const startCommand = new Command("start")
                         const gapTitle = gapResult.rows[0]?.properties?.title ??
                             gapResult.rows[0]?.properties?.description?.slice(0, 50) ?? ev.gapNodeId.slice(0, 12);
                         console.error(`[collection] Auto-collected ${evidenceNodes.length} evidence node${evidenceNodes.length === 1 ? "" : "s"} for gap: ${gapTitle}`);
+                        // Phase 2: Entity extraction — feed evidence text through Claude to create
+                        //          properly typed nodes (CustomerSignal, Decision, Feature, etc.)
+                        if (structuringPipeline && evidenceNodes.length > 0) {
+                            try {
+                                // Build RawCollectedData from evidence nodes
+                                const rawData = [];
+                                for (const evNode of evidenceNodes) {
+                                    // Fetch the full node content for extraction
+                                    const nodeResult = await pool.query(`SELECT properties, metadata FROM nodes WHERE id = $1`, [evNode.id]);
+                                    const node = nodeResult.rows[0];
+                                    if (!node)
+                                        continue;
+                                    const props = node.properties ?? {};
+                                    const meta = node.metadata ?? {};
+                                    const content = [
+                                        `[${evNode.type}] ${evNode.title}`,
+                                        props.description ?? meta.description ?? "",
+                                        props.body ?? meta.body ?? "",
+                                        props.content ?? meta.content ?? "",
+                                    ]
+                                        .filter(Boolean)
+                                        .join("\n");
+                                    if (content.trim().length < 10)
+                                        continue;
+                                    rawData.push({
+                                        source: {
+                                            system: "graph-mining",
+                                            reference: evNode.id,
+                                            agentId: null,
+                                            reliability: 0.7,
+                                        },
+                                        content,
+                                        metadata: {
+                                            sourceNodeId: evNode.id,
+                                            sourceNodeType: evNode.type,
+                                            gapId: evNode.targetNodeId,
+                                        },
+                                    });
+                                }
+                                if (rawData.length > 0) {
+                                    const collectionResult = {
+                                        planId: `auto-extract-${ev.gapNodeId}`,
+                                        rawData,
+                                        structuredOutput: null,
+                                        completedAt: new Date().toISOString(),
+                                    };
+                                    const structured = await structuringPipeline.process(collectionResult, [ev.gapNodeId]);
+                                    if (structured.createdNodeIds.length > 0) {
+                                        console.error(`[collection] Entity extraction created ${structured.createdNodeIds.length} typed node${structured.createdNodeIds.length === 1 ? "" : "s"} for gap: ${gapTitle}`);
+                                    }
+                                }
+                            }
+                            catch (extractErr) {
+                                // Entity extraction is best-effort — never crash the server
+                                console.error(`[collection] Entity extraction error: ${extractErr instanceof Error ? extractErr.message : String(extractErr)}`);
+                            }
+                        }
                     }
                 }
                 catch (err) {
@@ -125,12 +197,14 @@ export const startCommand = new Command("start")
         };
         const graphStatsFn = async () => {
             const { query } = await import("@codify/graph");
+            const { getProjectId } = await import("../lib/config.js");
+            const projectId = getProjectId();
             const [nodeStats, edgeCount, gapCount, freshnessAvg, oldestNewest] = await Promise.all([
-                query("SELECT type, COUNT(*)::int as count FROM nodes WHERE superseded_by IS NULL GROUP BY type"),
-                query("SELECT COUNT(*)::int as count FROM edges"),
-                query("SELECT COUNT(*)::int as count FROM nodes WHERE type = 'Gap' AND superseded_by IS NULL"),
-                query("SELECT COALESCE(AVG(freshness), 0)::float as avg FROM nodes WHERE superseded_by IS NULL"),
-                query("SELECT MIN(created_at) as oldest, MAX(created_at) as newest FROM nodes WHERE superseded_by IS NULL"),
+                query("SELECT type, COUNT(*)::int as count FROM nodes WHERE superseded_by IS NULL AND project_id = $1 GROUP BY type", [projectId]),
+                query("SELECT COUNT(*)::int as count FROM edges WHERE project_id = $1", [projectId]),
+                query("SELECT COUNT(*)::int as count FROM nodes WHERE type = 'Gap' AND superseded_by IS NULL AND project_id = $1", [projectId]),
+                query("SELECT COALESCE(AVG(freshness), 0)::float as avg FROM nodes WHERE superseded_by IS NULL AND project_id = $1", [projectId]),
+                query("SELECT MIN(created_at) as oldest, MAX(created_at) as newest FROM nodes WHERE superseded_by IS NULL AND project_id = $1", [projectId]),
             ]);
             const nodesByType = {};
             let totalNodes = 0;
@@ -138,7 +212,7 @@ export const startCommand = new Command("start")
                 nodesByType[row.type] = row.count;
                 totalNodes += row.count;
             }
-            const layerStats = await query("SELECT layer, COUNT(*)::int as count FROM nodes WHERE superseded_by IS NULL GROUP BY layer");
+            const layerStats = await query("SELECT layer, COUNT(*)::int as count FROM nodes WHERE superseded_by IS NULL AND project_id = $1 GROUP BY layer", [projectId]);
             const nodesByLayer = {};
             for (const row of layerStats.rows) {
                 nodesByLayer[row.layer] = row.count;

package/dist/commands/start.js.map

@@ -1 +1 @@
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package/dist/commands/status.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"status.d.ts","sourceRoot":"","sources":["../../src/commands/status.ts"],"names":[],"mappings":"AAEA,OAAO,EAAE,OAAO,EAAE,MAAM,WAAW,CAAC;AAGpC,eAAO,MAAM,aAAa,SA0StB,CAAC"}