@precisionutilityguild/liquid-shadow 1.0.5 → 1.0.7

package/dist/entry/ember/index.js

@@ -0,0 +1,545 @@
+var ot=Object.defineProperty;var P=(s,e)=>()=>(s&&(e=s(s=0)),e);var at=(s,e)=>{for(var t in e)ot(s,t,{get:e[t],enumerable:!0})};import lt from"pino";var ct,ut,d,M=P(()=>{"use strict";ct={10:"TRACE",20:"DEBUG",30:"INFO",40:"WARN",50:"ERROR",60:"FATAL"},ut=lt({level:process.env.LOG_LEVEL||"warn",base:{service:"liquid-shadow"},formatters:{level(s,e){return{level:s,severity:ct[e]??"INFO"}}},transport:{target:"pino-pretty",options:{colorize:!0,translateTime:"HH:MM:ss",destination:2,levelKey:"severity",messageKey:"message"}}}),d=ut});import{fileURLToPath as At}from"node:url";import{dirname as ae,join as De,resolve as xt}from"node:path";import{existsSync as wt}from"node:fs";function vt(){let s=Ie;for(;s!==ae(s);){if(wt(De(s,"package.json")))return s;s=ae(s)}return xt(Ie,"..","..")}function Me(...s){return De(vt(),...s)}var kt,Ie,Ce=P(()=>{"use strict";kt=At(import.meta.url),Ie=ae(kt)});import{Worker as Ht}from"node:worker_threads";import{cpus as Wt}from"node:os";import{fileURLToPath as Ft}from"node:url";import{dirname as Ut,join as Ae}from"node:path";import{existsSync as xe}from"node:fs";function Bt(){if(ke.endsWith(".ts")){let e=Ae(we,"worker.ts");if(xe(e))return e}let s=Ae(we,"worker.js");return xe(s)?s:Me("dist/logic/domain/embeddings/worker.js")}function x(s){return A||(A=new H(s)),A}async function ve(){A&&(await A.shutdown(),A=null)}var ke,we,H,A,He=P(()=>{"use strict";M();Ce();ke=Ft(import.meta.url),we=Ut(ke);H=class{workers=[];taskQueue=[];pendingTasks=new Map;taskIdCounter=0;initialized=!1;initPromise;shutdownRequested=!1;numWorkers;cacheDir;initTimeout;constructor(e={}){this.numWorkers=e.numWorkers??Math.max(1,Math.min(2,Wt().length-1)),this.cacheDir=e.cacheDir??"./.cache",this.initTimeout=e.initTimeout??6e4}async initialize(){if(!this.initialized)return this.initPromise?this.initPromise:(this.initPromise=this._doInitialize(),this.initPromise)}async _doInitialize(){let e;try{d.info({numWorkers:this.numWorkers},"Initializing embedding worker pool");let t=new 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zt(){d.info({model:G,dtype:F},"Loading embedding model...");let{pipeline:s}=await Pt(),e=We(!1);try{return await s("feature-extraction",G,e)}catch(t){let i=t?.message||"";if(!(i.includes("/onnx/model_quantized.onnx")||i.includes("model_quantized.onnx")))throw t;return d.warn({model:G,dtype:F},"Quantized ONNX artifact missing, retrying with unquantized ONNX"),await s("feature-extraction",G,We(!0))}}async function Ue(){return le||(le=zt()),le}async function Yt(s){try{let t=await(await Ue())(s,{pooling:"mean",normalize:!0});return Array.from(t.data)}catch(e){return d.error({err:e},"Failed to generate embedding"),null}}async function Kt(s,e=Fe,t){return s.length===0?[]:ue?x().generateEmbeddings(s,e,t):Be(s,e,t)}async function Be(s,e,t){let i=new Array(s.length).fill(null),n=await Ue();for(let r=0;r<s.length;r+=e){let c=Math.min(r+e,s.length),l=s.slice(r,c);try{let a=await n(l,{pooling:"mean",normalize:!0}),[o,u]=a.dims;for(let p=0;p<o;p++){let 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size(){return this.queue.length}get isProcessing(){return this.processing}getResult(e){return this.results.get(e)}async processQueue(e=Fe,t){if(this.processing)return d.warn("Queue processing already in progress"),this.results;this.processing=!0;let i=this.queue.length;try{ue?await this.processQueueParallel(e,i,t):await this.processQueueSequential(e,i,t)}finally{this.processing=!1}return this.results}async processQueueSequential(e,t,i){for(;this.queue.length>0;){let n=this.queue.splice(0,e),r=n.map(l=>l.text),c=await Be(r,r.length);if(n.forEach((l,a)=>{this.results.set(l.id,c[a])}),i){let l=t-this.queue.length;i(l,t)}}}async processQueueParallel(e,t,i){let n=this.queue.splice(0),r=n.map(a=>a.text),l=await x().generateEmbeddings(r,e,(a,o)=>{i&&i(a,o)});n.forEach((a,o)=>{this.results.set(a.id,l[o])})}clear(){this.queue=[],this.results.clear()}}});import de from"node:os";M();import yt from"better-sqlite3";import z from"path";import Te from"fs";import Tt from"crypto";M();import O from"fs";import $ from"path";import{fileURLToPath as dt}from"url";var R=d.child({module:"migrations"}),pt=dt(import.meta.url),mt=$.dirname(pt);function Et(){let s=mt;if(O.readdirSync(s).some(i=>i.match(/^\d{3}_.*\.sql$/)))return s;let t=$.resolve(s,"../../data/migrations");return O.existsSync(t)&&O.readdirSync(t).some(i=>i.match(/^\d{3}_.*\.sql$/))?t:s}function ht(s){s.exec(`
+    CREATE TABLE IF NOT EXISTS schema_migrations (
+      version    INTEGER PRIMARY KEY,
+      name       TEXT    NOT NULL,
+      applied_at REAL    DEFAULT (unixepoch())
+    );
+  `)}function gt(s){ht(s);let e=s.prepare("SELECT version FROM schema_migrations ORDER BY version").all();return new Set(e.map(t=>t.version))}function ft(s){return O.readdirSync(s).filter(t=>t.match(/^\d{3}_.*\.sql$/)&&!t.startsWith("000_")).sort().map(t=>{let i=t.match(/^(\d{3})_(.+)\.sql$/),n=parseInt(i[1],10),r=i[2],l=O.readFileSync($.join(s,t),"utf-8").split(/^-- DOWN$/m);return{version:n,name:r,up:l[0].trim(),down:l[1]?.trim()}})}function bt(s,e){R.info({version:e.version,name:e.name},"Applying migration"),s.transaction(()=>{s.exec(e.up),s.prepare("INSERT INTO schema_migrations (version, name) VALUES (?, ?)").run(e.version,e.name)})(),R.info({version:e.version},"Migration applied successfully")}function _t(s,e,t){let i=$.join(e,"000_baseline.sql");if(!O.existsSync(i)){R.warn("000_baseline.sql not found \u2014 falling back to incremental migrations");return}R.info("Fresh database detected \u2014 applying consolidated baseline schema");let n=O.readFileSync(i,"utf-8");s.transaction(()=>{s.exec(n);let r=s.prepare("INSERT OR IGNORE INTO schema_migrations (version, name) VALUES (?, ?)");for(let c of t)r.run(c.version,c.name)})(),R.info({stamped:t.length},"Baseline applied \u2014 incremental migrations stamped")}function ye(s){let e=gt(s),t=Et(),i=ft(t);if(e.size===0){_t(s,t,i);return}let n=i.filter(r=>!e.has(r.version));if(n.length===0){R.debug("No pending migrations");return}R.info({count:n.length},"Running pending migrations");for(let r of n)bt(s,r);R.info("All migrations complete")}import Rt from"os";var C=d.child({module:"db"});function re(s){let e=Rt.homedir(),t=z.join(e,".mcp-liquid-shadow"),i=z.join(t,"dbs");Te.existsSync(i)||Te.mkdirSync(i,{recursive:!0});let n=Tt.createHash("sha256").update(s).digest("hex").substring(0,12),c=`${z.basename(s).replace(/[^a-zA-Z0-9-_]/g,"_")}_${n}.db`;return z.join(i,c)}function Lt(s,e){let t=e||re(s);C.debug({repoPath:s,dbPath:t},"Initializing database");let i=new yt(t);return i.pragma("journal_mode = WAL"),i.pragma("busy_timeout = 5000"),ye(i),Y.set(s,t),L.set(t,i),C.debug({repoPath:s,dbPath:t},"Database initialized successfully"),i}var L=new Map,Y=new Map;function v(s){let e=Y.get(s)||re(s),t=L.get(e);if(t){if(t.open)return t;L.delete(e)}let i=Lt(s);return L.set(e,i),i}function Re(s){let e=Y.get(s)||re(s),t=L.get(e);t&&(t.open&&(C.debug({repoPath:s,dbPath:e},"Closing database connection"),t.close()),L.delete(e)),Y.delete(s)}function Le(){for(let[s,e]of L.entries())try{e.open&&(C.debug({dbPath:s},"Closing database connection"),e.close())}catch(t){C.error({dbPath:s,err:t},"Error closing database execution")}L.clear()}process.on("exit",()=>Le());var Se=s=>{C.debug({signal:s},"Received termination signal, closing databases"),Le(),process.exit(0)};process.on("SIGINT",()=>Se("SIGINT"));process.on("SIGTERM",()=>Se("SIGTERM"));import Ct from"path";var E=class{db;constructor(e){this.db=e}get database(){return this.db}all(e,...t){return this.db.prepare(e).all(...t)}get(e,...t){return this.db.prepare(e).get(...t)}run(e,...t){return this.db.prepare(e).run(...t).changes}insert(e,...t){return this.db.prepare(e).run(...t).lastInsertRowid}transaction(e){return this.db.transaction(e)()}};var St=new Set(["any","unknown","never","void","null","undefined","string","number","boolean","symbol","object","bigint","readonly","keyof","infer","extends","implements","class","interface","type","function","new"]);function Nt(s,e){if(!s)return!1;let t=s.trim();return!t||St.has(t.toLowerCase())||e.has(t)?!1:/^[A-Za-z_$][A-Za-z0-9_$.]*$/.test(t)}function Ot(s){return s.split(/[,|&]/).map(e=>e.trim()).filter(Boolean)}function It(s){let e=s.replace(/^[({\[]+/,"").replace(/[)}\]]+$/,"").replace(/^readonly\s+/,"").trim();return e&&e.match(/^([A-Za-z_$][A-Za-z0-9_$.]*)/)?.[1]||null}function Dt(s){let e=[],t=0,i="",n=!1;for(let r of s){if(r==="<"&&(t++,t===1)){n=!0,i="";continue}if(r===">"&&(t>0&&t--,t===0&&n)){n=!1,i.trim()&&e.push(i),i="";continue}n&&(i+=r)}return e}function Mt(s){let e=new Set;for(let t of s){let i=t.split(",").map(n=>n.trim());for(let n of i){let r=n.match(/^([A-Za-z_$][A-Za-z0-9_$]*)/);r?.[1]&&e.add(r[1])}}return e}function oe(s,e){let t=[];for(let i of Ot(s)){let n=It(i);n&&Nt(n,e)&&t.push(n)}return t}function Ne(s){if(!s)return[];let e=s.replace(/\s+/g," ").trim();if(!e)return[];let t=Dt(e),i=Mt(t),n=[],r=new Set,c=(o,u,p)=>{let m=`${o}:${u}`;r.has(m)||(r.add(m),n.push({relationship:o,targetName:u,...p?{metadata:p}:{}}))},l=e.match(/\bextends\s+(.+?)(?=\bimplements\b|\{|=|$)/);if(l?.[1]){let o=oe(l[1],i);for(let u of o)c("extends",u,l[1].trim())}let a=e.match(/\bimplements\s+(.+?)(?=\{|=|$)/);if(a?.[1]){let o=oe(a[1],i);for(let u of o)c("implements",u,a[1].trim())}for(let o of t){let u=/([A-Za-z_$][A-Za-z0-9_$]*)\s+extends\s+([^,>]+)/g,p=null;for(;(p=u.exec(o))!==null;){let 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+      SELECT * FROM files 
+      WHERE (path LIKE ? OR path = ?)
+      ORDER BY path ASC
+    `,`${n}%`,i)}findWithEmbeddings(){return this.all("SELECT * FROM files WHERE embedding IS NOT NULL")}findFts(e,t=10){return this.all(`
+      SELECT files.*, files_fts.rank
+      FROM files_fts
+      JOIN files ON files.rowid = files_fts.rowid
+      WHERE files_fts MATCH ?
+      ORDER BY rank
+      LIMIT ?
+    `,e,t)}findByPathKeywords(e,t=10){let i=e.map(()=>"LOWER(path) LIKE ?").join(" OR ");return this.all(`
+      SELECT * FROM files 
+      WHERE ${i}
+      LIMIT ?
+    `,...e.map(n=>`%${n}%`),t)}findContentFts(e,t=50){let i=this.buildContentFtsQuery(e);return i?this.all(`
+      SELECT
+        files.*,
+        bm25(content_fts, 0.2, 1.0) AS bm25_rank
+      FROM content_fts
+      JOIN files ON files.path = content_fts.file_path
+      WHERE content_fts MATCH ?
+      ORDER BY bm25_rank ASC
+      LIMIT ?
+    `,i,Math.max(1,Math.min(t,1e3))):[]}getContent(e){return this.get("SELECT content FROM file_content WHERE file_path = ?",e)?.content}findContentByToken(e,t=10){return this.all(`
+          SELECT file_path 
+          FROM content_fts 
+          WHERE content_fts MATCH ? 
+            AND (file_path LIKE '%.ts' OR file_path LIKE '%.tsx' OR file_path LIKE '%.js' OR file_path LIKE '%.py' OR file_path LIKE '%.php')
+            AND file_path NOT LIKE '%/test/%'
+            AND file_path NOT LIKE '%.spec.%'
+          LIMIT ?
+        `,`"${e.replace(/[^a-zA-Z0-9_\/]/g," ")}"`,t).map(n=>n.file_path)}findSynapses(e){let t="SELECT * FROM event_synapses WHERE 1=1",i=[];if(e.type&&(t+=" AND type = ?",i.push(e.type)),e.name){let n=e.name;n.startsWith("/")&&(n=n.substring(1)),n.endsWith("/")&&(n=n.substring(0,n.length-1)),n.length>0&&(t+=" AND (name LIKE ? OR name LIKE ? OR name = ?)",i.push(`${n}%`),i.push(`%/${n}%`),i.push(e.name))}return e.direction&&(t+=" AND direction = ?",i.push(e.direction)),t+=` LIMIT ${e.limit||50}`,this.all(t,...i)}exists(e){return!!this.get("SELECT 1 FROM files WHERE path = ?",e)}update(e,t){let i=Object.keys(t);if(i.length===0)return;let n=i.map(c=>`${c} = ?`).join(", "),r=Object.values(t);r.push(e),this.run(`UPDATE files SET ${n} WHERE path = ?`,...r)}getStats(){let e=this.get(`
+      SELECT
+        COUNT(*) as total,
+        SUM(CASE WHEN summary IS NOT NULL AND summary != '' THEN 1 ELSE 0 END) as withSummary
+      FROM files
+    `);return{total:e?.total||0,withSummary:e?.withSummary||0}}getGravityMap(e=[],t){let i={},n=`
+      SELECT ws.file_path, m.name as mission_name, m.status
+      FROM working_set ws
+      JOIN missions m ON ws.mission_id = m.id
+      WHERE (
+        (m.status IN ('in-progress', 'verifying') ${t?"AND m.git_branch = ?":""})
+        OR m.id IN (${e.length>0?e.join(","):"-1"})
+      )
+      AND ws.file_path IS NOT NULL
+    `,r=[];t&&r.push(t);let c=this.all(n,...r);for(let o of c){i[o.file_path]||(i[o.file_path]={score:1,reasons:[]});let u=o.status==="in-progress"||o.status==="verifying"?1:.5;i[o.file_path].score+=u;let p=o.status==="in-progress"||o.status==="verifying"?"Working Set":"Lineage Bleed";i[o.file_path].reasons.push(`${p}: ${o.mission_name}`)}let l=Math.floor(Date.now()/1e3)-86400,a=this.all(`
+      SELECT file_path, type, mission_id
+      FROM intent_logs
+      WHERE (created_at > ? OR mission_id IN (${e.length>0?e.join(","):"-1"}))
+      AND file_path IS NOT NULL
+      ORDER BY created_at DESC
+      LIMIT 100
+    `,l);for(let o of a){i[o.file_path]||(i[o.file_path]={score:1,reasons:[]});let u=o.mission_id?e.includes(o.mission_id):!1,p=u?.1:.2;i[o.file_path].score<5&&(i[o.file_path].score+=p);let m=u?`Lineage Intent: ${o.type}`:`Recent Intent: ${o.type}`;!i[o.file_path].reasons.includes(m)&&i[o.file_path].reasons.length<5&&i[o.file_path].reasons.push(m)}return i}getCount(){return this.get("SELECT COUNT(*) as count FROM files")?.count||0}getTopDirectories(e,t=8){return this.all(`
+        SELECT 
+            SUBSTR(path, LENGTH(?) + 2, 
+                INSTR(SUBSTR(path, LENGTH(?) + 2), '/') - 1
+            ) as root,
+            COUNT(*) as total_files,
+            SUM(CASE 
+                WHEN path LIKE '%.ts' OR path LIKE '%.tsx' 
+                  OR path LIKE '%.js' OR path LIKE '%.jsx' 
+                  OR path LIKE '%.mjs' OR path LIKE '%.cjs' 
+                THEN 1 ELSE 0 
+            END) as ts_files
+        FROM files 
+        WHERE path LIKE ? || '/%/%'
+        GROUP BY root
+        ORDER BY total_files DESC
+        LIMIT ?
+    `,e,e,e,t)}hasFilesPattern(e){return!!this.get("SELECT 1 FROM files WHERE path LIKE ? LIMIT 1",e)}findPackageJsonChildren(e){return this.all(`
+        SELECT
+            path,
+            SUBSTR(path, LENGTH(?) + 2) as relPath
+        FROM files
+        WHERE path LIKE ? || '/%/package.json'
+    `,e,e)}deletePaths(e){if(e.length===0)return;let t=this.db.prepare("DELETE FROM files WHERE path = ?");this.db.transaction(n=>{for(let r of n)t.run(r)})(e)}updateMtime(e,t){this.run("UPDATE files SET mtime = ? WHERE path = ?",t,e)}batchSaveIndexResults(e,t,i,n){let r=this.db.prepare("DELETE FROM exports WHERE file_path = ?"),c=this.db.prepare("DELETE FROM imports WHERE file_path = ?"),l=this.db.prepare("DELETE FROM configs WHERE file_path = ?"),a=this.db.prepare("DELETE FROM file_content WHERE file_path = ?"),o=this.db.prepare("DELETE FROM event_synapses WHERE file_path = ?"),u=this.db.prepare("DELETE FROM type_graph_edges WHERE file_path = ?"),p=this.db.prepare("INSERT INTO exports (file_path, name, kind, signature, doc, start_line, end_line, classification, capabilities, parent_id, embedding) VALUES (?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?)"),m=this.db.prepare("INSERT INTO imports (file_path, module_specifier, imported_symbols, resolved_path) VALUES (?, ?, ?, ?)"),y=this.db.prepare("INSERT INTO configs (file_path, key, value, kind) VALUES (?, ?, ?, ?)"),f=this.db.prepare("INSERT INTO file_content (file_path, content) VALUES (?, ?)"),T=this.db.prepare("INSERT INTO event_synapses (file_path, type, name, direction, line_number, code_snippet) VALUES (?, ?, ?, ?, ?, ?)"),N=this.db.prepare("INSERT INTO type_graph_edges (file_path, source_symbol_id, source_symbol_name, target_symbol_name, relationship, line_number, metadata) VALUES (?, ?, ?, ?, ?, ?, ?)"),Ve=this.db.prepare(`
+        INSERT INTO files (path, mtime, last_scanned_at, classification, summary, embedding, content_hash)
+        VALUES (?, ?, ?, ?, ?, ?, ?)
+        ON CONFLICT(path) DO UPDATE SET
+            mtime=excluded.mtime,
+            last_scanned_at=excluded.last_scanned_at,
+            classification=excluded.classification,
+            summary=excluded.summary,
+            embedding=excluded.embedding,
+            content_hash=excluded.content_hash
+    `),Je=this.db.transaction(D=>{for(let Qe of D){let{meta:b,exports:me,imports:Ee,configs:he,events:ge,content:U,classification:Xe,summary:Ze,embedding:fe,contentHash:et}=Qe;r.run(b.path),c.run(b.path),l.run(b.path),a.run(b.path),o.run(b.path),u.run(b.path);let tt=et??(U&&i?i(U):null);if(Ve.run(b.path,b.mtime,Date.now(),Xe||"Unknown",Ze||"",fe?JSON.stringify(fe):null,tt),me){let h=(k,it,nt)=>{for(let g of it){let st=g.embedding?JSON.stringify(g.embedding):null,be=p.run(k,g.name,g.kind,g.signature,g.doc||"",g.line,g.endLine||g.line,g.classification||"Other",g.capabilities||"[]",nt,st),_e=Number(be.lastInsertRowid);if(Number.isFinite(_e)){let rt=Ne(g.signature);for(let B of rt)B.targetName!==g.name&&N.run(k,_e,g.name,B.targetName,B.relationship,g.line,B.metadata||null)}g.members&&g.members.length>0&&h(k,g.members,be.lastInsertRowid)}};h(b.path,me,null)}if(Ee)for(let h of Ee){let k=h.resolved_path!==void 0?h.resolved_path:n?.(h.module,b.path,t)??"";m.run(b.path,h.module,h.name,k)}if(he)for(let h of he)y.run(b.path,h.key,h.value,h.kind);if(U!==void 0&&f.run(b.path,U),ge)for(let h of ge)T.run(b.path,h.type,h.name,h.direction,h.line,h.snippet)}}),pe=500;for(let D=0;D<e.length;D+=pe)Je(e.slice(D,D+pe))}getLatestScanTime(){return this.get("SELECT MAX(last_scanned_at) as t FROM files")?.t||null}buildContentFtsQuery(e){let t=e.replace(/([a-z0-9])([A-Z])/g,"$1 $2").toLowerCase().split(/[^a-z0-9_]+/).map(r=>r.trim()).filter(r=>r.length>=2).slice(0,12);if(t.length===0)return"";if(t.length===1)return`${t[0]}*`;let i=`"${t.join(" ")}"`,n=t.map(r=>`${r}*`).join(" OR ");return`${i} OR ${n}`}};var q=class s extends E{static HTTP_METHOD_EXPORTS=new Set(["GET","POST","PUT","PATCH","DELETE","HEAD","OPTIONS"]);findByNameAndFile(e,t){return this.all("SELECT * FROM exports WHERE file_path = ? AND name = ?",t,e)}findByNameGlobal(e){return this.all("SELECT * FROM exports WHERE name = ?",e)}findAtLine(e,t){return this.get(`
+      SELECT * FROM exports 
+      WHERE file_path = ? AND start_line <= ? AND end_line >= ?
+      ORDER BY (end_line - start_line) ASC -- Get innermost symbol
+      LIMIT 1
+    `,e,t,t)}findById(e){return this.get("SELECT * FROM exports WHERE id = ?",e)}findHydratedById(e){let t=this.findById(e);if(!t)return;let i=this.all(`
+      SELECT id, mission_id, type, content, created_at, confidence, is_crystallized, crystal_id
+      FROM intent_logs
+      WHERE symbol_id = ?
+      ORDER BY created_at DESC
+      LIMIT 10
+    `,e),r=this.get("SELECT COUNT(*) as count FROM intent_logs WHERE symbol_id = ?",e)?.count||0,c=this.all(`
+      SELECT m.id, m.name, m.status
+      FROM missions m
+      JOIN working_set ws ON ws.mission_id = m.id
+      WHERE ws.symbol_id = ? 
+      AND m.status IN ('in-progress', 'planned', 'verifying')
+      GROUP BY m.id
+    `,e);return{...t,recent_intents:i,intent_log_count:r,active_missions:c}}findRoutesByCapability(e){return this.all(`
+          SELECT name, file_path, signature
+          FROM exports 
+          WHERE kind = 'HTTP Route' 
+            AND capabilities LIKE ?
+        `,`%${e}%`)}findRoutesByToken(e,t=5){return this.all(`
+      SELECT *
+      FROM exports
+      WHERE (kind = 'HTTP Route' OR classification = 'Service Boundary')
+      AND (name LIKE ? OR signature LIKE ?)
+      LIMIT ?
+      `,`%${e}%`,`%${e}%`,t)}findByFile(e){return this.all("SELECT * FROM exports WHERE file_path = ? ORDER BY start_line ASC",e)}findByFiles(e){if(e.length===0)return[];let t=e.map(()=>"?").join(", ");return this.all(`SELECT * FROM exports WHERE file_path IN (${t}) ORDER BY file_path, start_line ASC`,...e)}findWithEmbeddings(e=5e3){return this.all(`
+      SELECT *
+      FROM exports
+      WHERE embedding IS NOT NULL
+      ORDER BY file_path, start_line
+      LIMIT ?
+      `,e)}findSiblings(e){return this.all(`
+        SELECT name, kind, signature, start_line, end_line, 
+               parent_id, id,
+               (SELECT name FROM exports WHERE id = e.parent_id) as parent_name
+        FROM exports e
+        WHERE file_path = ?
+        AND parent_id IS NULL
+        ORDER BY start_line ASC
+    `,e)}findByName(e,t=20){return this.all("SELECT * FROM exports WHERE name = ? LIMIT ?",e,t)}findClassByName(e){return this.get("SELECT * FROM exports WHERE name = ? AND kind = 'ClassDeclaration' LIMIT 1",e)}findDefinitionCandidates(e,t){let i=[e],n=`
+        SELECT e.id, e.name, e.kind, e.start_line, e.end_line, e.signature, e.doc, 
+               f.path as file_path, e.classification, e.capabilities,
+               p.name as parent_name, p.kind as parent_kind
+        FROM exports e
+        JOIN files f ON e.file_path = f.path
+        LEFT JOIN exports p ON e.parent_id = p.id
+        WHERE e.name = ?
+    `;return t&&(n+=" AND f.path = ?",i.push(t)),n+=`
+        ORDER BY 
+        CASE WHEN e.parent_id IS NULL THEN 0 ELSE 1 END,
+        CASE WHEN e.kind = 'ExportSpecifier' THEN 2 ELSE 0 END
+        LIMIT 10
+    `,this.all(n,...i)}findMemberCandidates(e,t,i){let n=[e,t],r=`
+        SELECT e.id, e.name, e.kind, e.start_line, e.end_line, e.signature, e.doc, 
+               f.path as file_path, e.classification, e.capabilities,
+               p.name as parent_name, p.kind as parent_kind
+        FROM exports e
+        JOIN files f ON e.file_path = f.path
+        LEFT JOIN exports p ON e.parent_id = p.id
+        WHERE p.name = ? AND e.name = ?
+    `;return i&&(r+=" AND f.path = ?",n.push(i)),r+=`
+        ORDER BY 
+        CASE WHEN e.parent_id IS NULL THEN 0 ELSE 1 END,
+        CASE WHEN e.kind = 'ExportSpecifier' THEN 2 ELSE 0 END
+        LIMIT 10
+    `,this.all(r,...n)}findPotentialParents(e){return this.all(`
+            SELECT name, kind, file_path 
+            FROM exports 
+            WHERE kind IN ('ClassDeclaration', 'ClassExpression', 'TsInterfaceDeclaration')
+            AND id IN (
+                SELECT rowid FROM content_fts WHERE content MATCH ?
+            )
+            LIMIT 3
+        `,`"${e}"`)}findFuzzyCandidates(e){let t=e.charAt(0).toLowerCase();return this.all(`
+            SELECT DISTINCT name FROM exports
+            WHERE parent_id IS NULL
+            AND (name LIKE ? OR name LIKE ? OR ABS(LENGTH(name) - LENGTH(?)) <= 5)
+            ORDER BY ABS(LENGTH(name) - LENGTH(?)) ASC
+            LIMIT 1000
+        `,t+"%","%"+t+"%",e,e)}findTopLevelByFile(e){return this.all(`
+      SELECT * FROM exports 
+      WHERE file_path = ? AND parent_id IS NULL 
+      ORDER BY start_line ASC
+    `,e)}findFts(e,t=20){return this.all(`
+      SELECT e.*
+      FROM exports e
+      JOIN exports_fts ON e.id = exports_fts.rowid
+      WHERE exports_fts MATCH ?
+      LIMIT ?
+    `,e,t)}findByPartialName(e,t=20){return this.all(`
+      SELECT * FROM exports 
+      WHERE lower(name) LIKE ?
+      LIMIT ?
+    `,`%${e.toLowerCase()}%`,t)}getAllNames(e=5e3){return this.all("SELECT DISTINCT name FROM exports WHERE parent_id IS NULL LIMIT ?",e).map(i=>i.name)}countByFile(e){return this.get("SELECT COUNT(*) as count FROM exports WHERE file_path = ?",e)?.count||0}findDeadExports(e={}){let{limit:t=50,includeTests:i=!1,includeMigrations:n=!1,includeFixtures:r=!1,excludePatterns:c=[],confidenceThreshold:l="all"}=e,a=[];i||(a.push("e.file_path NOT LIKE '%/test/%'"),a.push("e.file_path NOT LIKE '%/tests/%'"),a.push("e.file_path NOT LIKE '%/__tests__/%'"),a.push("e.file_path NOT LIKE '%.spec.%'"),a.push("e.file_path NOT LIKE '%.test.%'")),n||(a.push("e.file_path NOT LIKE '%/migrations/%'"),a.push("e.file_path NOT LIKE '%/migration/%'"),a.push("e.file_path NOT LIKE '%Migration.%'")),r||(a.push("e.file_path NOT LIKE '%/__fixtures__/%'"),a.push("e.file_path NOT LIKE '%/__mocks__/%'"),a.push("e.file_path NOT LIKE '%/fixtures/%'"),a.push("e.file_path NOT LIKE '%/mocks/%'"),a.push("e.file_path NOT LIKE '%.fixture.%'"),a.push("e.file_path NOT LIKE '%.mock.%'"));for(let f of c){let T=f.replace(/\*\*/g,"%").replace(/\*/g,"%").replace(/\?/g,"_");a.push(`e.file_path NOT LIKE '${T}'`)}let o=a.length>0?`AND ${a.join(" AND ")}`:"",m=this.all(`
+        SELECT e.name, e.kind, e.file_path, e.start_line
+        FROM exports e
+        WHERE e.kind IN (
+          'FunctionDeclaration', 'ClassDeclaration',
+          'TsInterfaceDeclaration', 'TsTypeAliasDeclaration', 'TsEnumDeclaration',
+          'ArrowFunctionExpression', 'FunctionExpression'
+        )
+        AND e.parent_id IS NULL
+        ${o}
+        AND NOT EXISTS (
+          SELECT 1
+          FROM imports i
+          WHERE REPLACE(i.imported_symbols, ' ', '') = e.name
+             OR REPLACE(i.imported_symbols, ' ', '') LIKE e.name || ',%'
+             OR REPLACE(i.imported_symbols, ' ', '') LIKE '%,' || e.name
+             OR REPLACE(i.imported_symbols, ' ', '') LIKE '%,' || e.name || ',%'
+        )
+        AND NOT EXISTS (SELECT 1 FROM imports i WHERE i.resolved_path = e.file_path AND i.imported_symbols LIKE '%*%')
+        ORDER BY e.file_path, e.start_line
+        LIMIT ?
+    `,t*2).filter(f=>!this.isFrameworkEntrypointExport(f)).map(f=>{let{confidence:T,reason:N}=this.scoreDeadExportConfidence(f);return{...f,confidence:T,reason:N}}),y=m;return l==="high"?y=m.filter(f=>f.confidence==="high"):l==="medium"&&(y=m.filter(f=>f.confidence==="high"||f.confidence==="medium")),y.slice(0,t)}scoreDeadExportConfidence(e){let t=e.file_path.toLowerCase(),i=e.name;return t.includes("/index.")||t.endsWith("index.ts")||t.endsWith("index.js")?{confidence:"low",reason:"Barrel/index file - likely re-export"}:e.kind==="TsInterfaceDeclaration"||e.kind==="TsTypeAliasDeclaration"?{confidence:"medium",reason:"Type definition - may be used externally"}:t.includes("/entry/")||t.includes("/bin/")||t.includes("main.")||t.includes("server.")||t.includes("cli.")?{confidence:"medium",reason:"Entry point - may be invoked externally"}:(t.includes("/components/")||t.endsWith(".tsx")||t.endsWith(".jsx"))&&/^[A-Z][A-Za-z0-9_]*$/.test(i)?{confidence:"medium",reason:"Component export - may be used by runtime composition"}:(t.includes("/contexts/")||t.includes("/context/"))&&(/Provider$/.test(i)||i.startsWith("use"))?{confidence:"medium",reason:"Context/provider export - may be wired dynamically"}:i.startsWith("create")||i.endsWith("Factory")||i.endsWith("Builder")?{confidence:"medium",reason:"Factory/builder pattern - may be used dynamically"}:i.startsWith("use")&&i.length>3?{confidence:"medium",reason:"Hook pattern - may be used in components"}:{confidence:"high",reason:"No detected usage"}}isFrameworkEntrypointExport(e){let i=e.file_path.toLowerCase().replace(/\\/g,"/"),n=e.name;return!!(/(^|\/)(src\/)?app\/.*\/route\.(t|j)sx?$/.test(i)&&s.HTTP_METHOD_EXPORTS.has(n)||/(^|\/)(src\/)?app\/.*\/(page|layout|loading|error|not-found|default|template)\.(t|j)sx?$/.test(i)||/(^|\/)(src\/)?middleware\.(t|j)sx?$/.test(i)||i.includes("/routes/")&&["loader","action","meta","headers"].includes(n))}getGravityMap(e=[],t){let i={},n=`
+      SELECT ws.symbol_id, m.name as mission_name, m.status
+      FROM working_set ws
+      JOIN missions m ON ws.mission_id = m.id
+      WHERE (
+        (m.status IN ('in-progress', 'verifying') ${t?"AND m.git_branch = ?":""})
+        OR m.id IN (${e.length>0?e.join(","):"-1"})
+      )
+      AND ws.symbol_id IS NOT NULL
+    `,r=[];t&&r.push(t);let c=this.all(n,...r);for(let o of c){i[o.symbol_id]||(i[o.symbol_id]={score:1,reasons:[]});let u=o.status==="in-progress"||o.status==="verifying"?1:.5;i[o.symbol_id].score+=u;let p=o.status==="in-progress"||o.status==="verifying"?"Working Set":"Lineage Bleed";i[o.symbol_id].reasons.push(`${p}: ${o.mission_name}`)}let l=Math.floor(Date.now()/1e3)-86400,a=this.all(`
+      SELECT symbol_id, type, mission_id
+      FROM intent_logs
+      WHERE (created_at > ? OR mission_id IN (${e.length>0?e.join(","):"-1"}))
+      AND symbol_id IS NOT NULL
+      ORDER BY created_at DESC
+      LIMIT 200
+    `,l);for(let o of a){i[o.symbol_id]||(i[o.symbol_id]={score:1,reasons:[]});let u=o.mission_id?e.includes(o.mission_id):!1,p=u?.1:.2;i[o.symbol_id].score<5&&(i[o.symbol_id].score+=p);let m=u?`Lineage Intent: ${o.type}`:`Recent Intent: ${o.type}`;!i[o.symbol_id].reasons.includes(m)&&i[o.symbol_id].reasons.length<5&&i[o.symbol_id].reasons.push(m)}return i}getCount(){return this.get("SELECT COUNT(*) as count FROM exports")?.count||0}getKindDistribution(e=5){return this.all(`
+            SELECT kind, COUNT(*) as c 
+            FROM exports 
+            WHERE kind IS NOT NULL AND kind != ''
+            GROUP BY kind 
+            ORDER BY c DESC 
+            LIMIT ?
+        `,e)}getWithEmbeddingsCount(){return this.get("SELECT COUNT(*) as count FROM exports WHERE embedding IS NOT NULL")?.count||0}findByMethodName(e){return this.all(`
+      SELECT * FROM exports 
+      WHERE name = ? 
+         OR name LIKE ? 
+         OR name LIKE ?
+      LIMIT 10
+      `,e,`%.${e}`,`%::${e}`)}findTypeGraphEdges(e,t={}){let{filePath:i,direction:n="both",relationship:r,limit:c=50}=t,l=Math.max(1,Math.min(c,500)),a=[];if(n==="both"||n==="outbound"){let o=`
+        SELECT
+          id,
+          file_path,
+          source_symbol_id,
+          source_symbol_name,
+          target_symbol_name,
+          relationship,
+          line_number,
+          metadata,
+          'outbound' AS direction
+        FROM type_graph_edges
+        WHERE source_symbol_name = ?
+      `,u=[e];i&&(o+=" AND file_path = ?",u.push(i)),r&&(o+=" AND relationship = ?",u.push(r)),o+=" ORDER BY file_path ASC, line_number ASC, target_symbol_name ASC LIMIT ?",u.push(l),a.push(...this.all(o,...u))}if(n==="both"||n==="inbound"){let o=`
+        SELECT
+          id,
+          file_path,
+          source_symbol_id,
+          source_symbol_name,
+          target_symbol_name,
+          relationship,
+          line_number,
+          metadata,
+          'inbound' AS direction
+        FROM type_graph_edges
+        WHERE target_symbol_name = ?
+      `,u=[e];r&&(o+=" AND relationship = ?",u.push(r)),o+=" ORDER BY file_path ASC, line_number ASC, source_symbol_name ASC LIMIT ?",u.push(l),a.push(...this.all(o,...u))}return a.slice(0,l)}findTypeGraphEdgesBySymbolId(e,t={}){let i=this.findById(e);return i?this.findTypeGraphEdges(i.name,{...t,filePath:i.file_path}):[]}};var Oe=`
+WITH RECURSIVE dependency_chain AS (
+    -- Base case: Direct dependents of the target symbol
+    -- Meaning: Files that import the file where the symbol is defined
+    SELECT 
+        i.file_path as consumer_path,
+        i.module_specifier,
+        i.imported_symbols,
+        f.path as source_path,
+        1 as depth,
+        i.file_path || '<-' || f.path as path_chain
+    FROM imports i
+    JOIN files f ON i.resolved_path = f.path
+    WHERE f.path = ? -- The file where our changed symbol lives
+      AND (
+          -- Exact symbol match or wildcard import
+          i.imported_symbols LIKE ? 
+          OR i.imported_symbols = '*' 
+          OR i.imported_symbols = 'default'
+          OR i.imported_symbols = ''
+      )
+
+    UNION ALL
+
+    -- Recursive step: Find consumers of the consumers
+    SELECT 
+        i.file_path as consumer_path,
+        i.module_specifier,
+        i.imported_symbols,
+        dc.consumer_path as source_path,
+        dc.depth + 1,
+        i.file_path || '<-' || dc.path_chain
+    FROM imports i
+    JOIN dependency_chain dc ON i.resolved_path = dc.consumer_path
+    WHERE dc.depth < ? -- Max depth limit
+      AND instr(dc.path_chain, i.file_path) = 0 -- Cycle detection
+      AND (
+          -- If the intermediate file is a re-exporter (barrel), 
+          -- the next consumer must still be looking for the symbol
+          i.imported_symbols LIKE ? 
+          OR i.imported_symbols = '*' 
+          OR i.imported_symbols = ''
+      )
+)
+SELECT DISTINCT 
+    dc.consumer_path,
+    dc.depth,
+    dc.source_path,
+    dc.imported_symbols
+FROM dependency_chain dc
+ORDER BY dc.depth, dc.consumer_path;
+`;var j=class extends E{findByFile(e){return this.all("SELECT * FROM imports WHERE file_path = ?",e)}findByFiles(e){if(e.length===0)return[];let t=e.map(()=>"?").join(", ");return this.all(`SELECT * FROM imports WHERE file_path IN (${t}) ORDER BY file_path`,...e)}getAllResolved(){return this.all(`
+            SELECT * FROM imports 
+            WHERE resolved_path IS NOT NULL AND resolved_path != ''
+        `)}findDependents(e){return this.all("SELECT * FROM imports WHERE resolved_path = ?",e)}countByFile(e){return this.get("SELECT COUNT(*) as count FROM imports WHERE file_path = ?",e)?.count||0}countDependents(e){return this.get("SELECT COUNT(*) as count FROM imports WHERE resolved_path = ?",e)?.count||0}getImportsForFile(e){return this.all("SELECT module_specifier, imported_symbols, resolved_path FROM imports WHERE file_path = ?",e)}findImportSource(e,t){return this.get(`
+            SELECT *
+            FROM imports 
+            WHERE file_path = ? 
+            AND (imported_symbols LIKE ? OR imported_symbols = '*')
+            LIMIT 1
+      `,e,`%${t}%`)}findProxies(e){return this.all(`
+            SELECT i.file_path
+            FROM imports i
+            JOIN exports e ON i.file_path = e.file_path
+            WHERE i.resolved_path = ?
+            AND (e.kind = 'ExportAllDeclaration' OR e.kind = 'ExportMapping')
+        `,e)}findVerifiedDependents(e,t){if(e.length===0)return[];let i=e.map(()=>"?").join(", ");return this.all(`
+        SELECT i.file_path, i.imported_symbols, f.classification, f.summary
+        FROM imports i
+        JOIN files f ON i.file_path = f.path
+        WHERE i.resolved_path IN (${i})
+        AND (i.imported_symbols LIKE ? OR i.imported_symbols = '' OR i.imported_symbols = '*')
+        LIMIT 10
+    `,...e,`%${t}%`)}countVerifiedDependents(e,t){if(e.length===0)return 0;let i=e.map(()=>"?").join(", ");return this.get(`
+            SELECT COUNT(*) as count FROM imports 
+            WHERE resolved_path IN (${i})
+            AND (imported_symbols LIKE ? OR imported_symbols = '' OR imported_symbols = '*')
+        `,...e,`%${t}%`)?.count||0}findImpactDependents(e,t,i){return this.all(Oe,e,t,i,t)}getCount(){return this.get("SELECT COUNT(*) as count FROM imports")?.count||0}};var V=class extends E{findById(e){return this.get("SELECT * FROM missions WHERE id = ?",e)}findByIds(e){if(e.length===0)return[];let t=e.map(()=>"?").join(", ");return this.all(`SELECT * FROM missions WHERE id IN (${t})`,...e)}findActive(e){let t="SELECT * FROM missions WHERE status IN ('in-progress', 'planned', 'verifying')",i=[];return e&&(t+=" AND git_branch = ?",i.push(e)),t+=` ORDER BY 
+        CASE WHEN status = 'in-progress' THEN 0 WHEN status = 'verifying' THEN 1 ELSE 2 END, 
+        created_at ASC`,this.all(t,...i)}findAll(e){let t="SELECT * FROM missions",i=[];return e&&(t+=" WHERE status = ?",i.push(e)),t+=` ORDER BY 
+        CASE WHEN status = 'in-progress' THEN 0 WHEN status = 'verifying' THEN 1 ELSE 2 END, 
+        created_at ASC`,this.all(t,...i)}findRecentCompleted(e=3){return this.all(`
+      SELECT * FROM missions 
+      WHERE status = 'completed' 
+      ORDER BY updated_at DESC, id DESC 
+      LIMIT ?
+    `,e)}create(e){return this.insert(`
+      INSERT INTO missions (name, goal, strategy_graph, status, git_branch, commit_sha, parent_id, verification_context, outcome_contract)
+      VALUES (?, ?, ?, ?, ?, ?, ?, ?, ?)
+    `,e.name,e.goal,e.strategy_graph,e.status,e.git_branch,e.commit_sha,e.parent_id,e.verification_context,e.outcome_contract)}addArtifact(e,t,i,n){this.run("INSERT INTO mission_artifacts (mission_id, type, identifier, metadata) VALUES (?, ?, ?, ?)",e,t,i,n?JSON.stringify(n):null)}getArtifacts(e){return this.all("SELECT * FROM mission_artifacts WHERE mission_id = ?",e)}update(e,t){let i=Object.keys(t);if(i.length===0)return;let n=i.map(c=>`${c} = ?`).join(", "),r=Object.values(t);r.push(e),this.run(`UPDATE missions SET ${n}, updated_at = unixepoch() WHERE id = ?`,...r)}updateStatus(e,t,i){i?this.run("UPDATE missions SET status = ?, updated_at = unixepoch(), commit_sha = ? WHERE id = ?",t,i,e):this.run("UPDATE missions SET status = ?, updated_at = unixepoch() WHERE id = ?",t,e)}getWorkingSet(e){let t=this.all(`
+      SELECT file_path, type, source_priority, created_at
+      FROM (
+        SELECT
+          ws.file_path,
+          COALESCE(ws.type, 'file') AS type,
+          0 AS source_priority,
+          ws.created_at
+        FROM working_set ws
+        WHERE ws.mission_id = ?
+
+        UNION ALL
+
+        SELECT
+          il.file_path,
+          'intent' AS type,
+          1 AS source_priority,
+          il.created_at
+        FROM intent_logs il
+        WHERE il.mission_id = ?
+          AND il.file_path IS NOT NULL
+
+        UNION ALL
+
+        SELECT
+          e.file_path,
+          'symbol' AS type,
+          2 AS source_priority,
+          il.created_at
+        FROM intent_logs il
+        JOIN exports e ON e.id = il.symbol_id
+        WHERE il.mission_id = ?
+          AND e.file_path IS NOT NULL
+      )
+      WHERE file_path IS NOT NULL
+      ORDER BY source_priority ASC, created_at DESC, file_path ASC
+    `,e,e,e),i=new Map;for(let n of t)!n.file_path||i.has(n.file_path)||i.set(n.file_path,{file_path:n.file_path,type:n.type||"file"});return[...i.values()]}clearWorkingSet(e){this.run("DELETE FROM working_set WHERE mission_id = ?",e)}addToWorkingSet(e,t,i="file"){this.run("INSERT OR IGNORE INTO files (path, mtime, last_scanned_at) VALUES (?, unixepoch(), unixepoch())",t),this.run("INSERT INTO working_set (mission_id, file_path, type) VALUES (?, ?, ?)",e,t,i)}findColdMissions(e,t=10){return this.all(`
+      SELECT m.id, COUNT(il.id) as log_count
+      FROM missions m
+      LEFT JOIN intent_logs il ON il.mission_id = m.id
+      WHERE m.updated_at < ?
+      AND m.status != 'distilled'
+      GROUP BY m.id
+      HAVING log_count > ?
+    `,e,t).map(n=>n.id)}getStats(){let e=this.get(`
+      SELECT
+        COUNT(*) as total,
+        SUM(CASE WHEN status='completed' THEN 1 ELSE 0 END) as completed,
+        SUM(CASE WHEN status IN ('in-progress', 'planned', 'verifying') THEN 1 ELSE 0 END) as active
+      FROM missions
+    `);return{total:e?.total||0,completed:e?.completed||0,active:e?.active||0}}getAnalytics(){let e=this.getStats(),t=e.total>0?Math.round(e.completed/e.total*100):0,i=this.get(`
+      SELECT AVG(updated_at - created_at) AS avg_duration
+      FROM missions
+      WHERE status = 'completed' AND updated_at > created_at
+    `),n=i?.avg_duration!=null?Math.round(i.avg_duration):null,r=Math.floor(Date.now()/1e3)-168*3600,c=Math.floor(Date.now()/1e3)-720*3600,l=this.get("SELECT COUNT(*) AS n FROM missions WHERE status = 'completed' AND updated_at >= ?",r),a=this.get("SELECT COUNT(*) AS n FROM missions WHERE status = 'completed' AND updated_at >= ?",c),o=l?.n??0,u=a?.n??0,p=`${o} completed in last 7 days, ${u} in last 30 days.`;if(n!=null){let m=Math.round(n/60);p+=` Avg mission duration: ${m} min.`}return{completionRate:t,averageDurationSeconds:n,completedLast7Days:o,completedLast30Days:u,velocityNote:p}}suspendByBranch(e){return this.run(`UPDATE missions 
+       SET status = 'suspended', updated_at = unixepoch() 
+       WHERE git_branch = ? AND status IN ('in-progress', 'verifying')`,e)}resumeByBranch(e){return this.run(`UPDATE missions 
+       SET status = 'in-progress', updated_at = unixepoch() 
+       WHERE git_branch = ? AND status = 'suspended'`,e)}findMergedMissions(e,t){if(t.length===0)return[];let i=t.filter(r=>r!==e);if(i.length===0)return[];let n=i.map(()=>"?").join(",");return this.all(`SELECT * FROM missions 
+       WHERE status IN ('in-progress', 'planned', 'verifying', 'suspended')
+       AND git_branch IN (${n})`,...i)}findByCommitShas(e){if(e.length===0)return[];let t=e.map(()=>"?").join(",");return this.all(`SELECT * FROM missions WHERE commit_sha IN (${t})`,...e)}findByParentId(e){return this.all("SELECT * FROM missions WHERE parent_id = ?",e)}hasChildren(e){return!!this.get("SELECT 1 FROM missions WHERE parent_id = ? LIMIT 1",e)}hasNoSteps(e){if(!e.strategy_graph)return!0;try{let t=JSON.parse(e.strategy_graph),i=t?.steps??t;return!Array.isArray(i)||i.length===0}catch{return!0}}findParentOnlyIds(e){return e.filter(t=>t.parent_id!=null||!this.hasChildren(t.id)?!1:this.hasNoSteps(t)).map(t=>t.id)}createLink(e,t,i,n,r){this.db.exec(`
+            CREATE TABLE IF NOT EXISTS cross_repo_links (
+                id INTEGER PRIMARY KEY AUTOINCREMENT,
+                mission_id INTEGER NOT NULL,
+                linked_repo_path TEXT NOT NULL,
+                linked_mission_id INTEGER NOT NULL,
+                relationship TEXT,
+                direction TEXT,
+                created_at REAL DEFAULT (unixepoch()),
+                FOREIGN KEY(mission_id) REFERENCES missions(id) ON DELETE CASCADE
+            );
+            CREATE INDEX IF NOT EXISTS idx_cross_repo_mission ON cross_repo_links(mission_id);
+    `),this.run(`
+      INSERT INTO cross_repo_links (mission_id, linked_repo_path, linked_mission_id, relationship, direction)
+      VALUES (?, ?, ?, ?, ?)
+    `,e,t,i,n,r)}getLinks(e){try{return this.all(`
+        SELECT linked_repo_path, linked_mission_id, relationship, direction
+        FROM cross_repo_links
+        WHERE mission_id = ?
+      `,e)}catch{return[]}}findLastMission(){return this.get("SELECT * FROM missions ORDER BY updated_at DESC, id DESC LIMIT 1")}findActiveByPriority(){return this.get("SELECT * FROM missions WHERE status IN ('in-progress', 'active', 'verifying') ORDER BY CASE WHEN status = 'in-progress' THEN 0 ELSE 1 END, created_at ASC LIMIT 1")}addHandoff(e,t){let i=JSON.stringify(t),n=e??0,r=this.insert("INSERT INTO mission_artifacts (mission_id, type, identifier, metadata) VALUES (?, ?, ?, ?)",n,"handoff",t.kind,i),c=[`[handoff:${t.kind}]`,...t.findings.map(l=>l.statement),...t.risks.map(l=>l.description),...t.gaps].filter(Boolean).join(" ");return Promise.resolve().then(()=>(S(),I)).then(({generateEmbedding:l})=>l(c)).then(l=>{l&&this.run("UPDATE mission_artifacts SET embedding = ? WHERE id = ?",JSON.stringify(l),r)}).catch(()=>{}),r}getHandoffs(e,t,i=20){let n=["type = 'handoff'"],r=[];e!==void 0&&(n.push("mission_id = ?"),r.push(e??0)),t&&(n.push("identifier = ?"),r.push(t));let c=`SELECT * FROM mission_artifacts WHERE ${n.join(" AND ")} ORDER BY created_at DESC LIMIT ?`;return r.push(i),this.all(c,...r)}async findSemanticHandoffs(e,t=5){let{cosineSimilarity:i}=await Promise.resolve().then(()=>(S(),I)),n=this.all("SELECT * FROM mission_artifacts WHERE type = 'handoff' AND embedding IS NOT NULL"),r=[];for(let c of n)try{let l=JSON.parse(c.embedding),a=i(e,l);a>.3&&r.push({...c,similarity:a})}catch{}return r.sort((c,l)=>l.similarity-c.similarity).slice(0,t)}};M();var J=class s extends E{findByMission(e,t=50){return this.all(`
+      SELECT 
+        id, mission_id, symbol_id, file_path, type, content, confidence, 
+        symbol_name, signature, commit_sha, is_crystallized, crystal_id, 
+        created_at
+      FROM intent_logs 
+      WHERE mission_id = ? 
+      ORDER BY created_at DESC 
+      LIMIT ?
+    `,e,t)}findRecentDecisionActivity(e=10){return this.all(`
+      SELECT 
+        id, mission_id, symbol_id, file_path, type, content, confidence, 
+        symbol_name, signature, commit_sha, is_crystallized, crystal_id, 
+        created_at
+      FROM intent_logs 
+      WHERE type IN ('decision', 'system', 'fix', 'heritage', 'adr')
+      ORDER BY created_at DESC 
+      LIMIT ?
+    `,e)}create(e){let t=this.insert(`
+      INSERT INTO intent_logs (mission_id, symbol_id, file_path, type, content, confidence, symbol_name, signature, commit_sha)
+      VALUES (?, ?, ?, ?, ?, ?, ?, ?, ?)
+    `,e.mission_id,e.symbol_id,e.file_path,e.type,e.content,e.confidence,e.symbol_name,e.signature,e.commit_sha);return s.EMBEDDABLE_TYPES.has(e.type)&&this.generateAndStoreEmbedding(Number(t),e).catch(i=>{d.debug({err:i,intentLogId:t},"Failed to generate intent log embedding")}),t}static EMBEDDABLE_TYPES=new Set(["decision","discovery","fix","blocker","note","heritage","crystal"]);static buildEmbeddingText(e){let t=[`[${e.type}]`];return e.symbol_name&&t.push(`symbol: ${e.symbol_name}`),e.file_path&&t.push(`file: ${e.file_path.split("/").pop()}`),t.push(e.content),t.join(" ")}async generateAndStoreEmbedding(e,t){let{generateEmbedding:i}=await Promise.resolve().then(()=>(S(),I)),n=s.buildEmbeddingText(t),r=await i(n);r&&this.run("UPDATE intent_logs SET embedding = ? WHERE id = ?",JSON.stringify(r),e)}findWithEmbeddings(){return this.all("SELECT * FROM intent_logs WHERE embedding IS NOT NULL AND type NOT IN ('system', 'lapsed')")}async findSemanticMatches(e,t,i){let{cosineSimilarity:n}=await Promise.resolve().then(()=>(S(),I)),r=this.findWithEmbeddings();if(r.length>5e3)return d.warn({count:r.length},"Intent log count exceeds brute-force vector scan limit (5000). Skipping semantic recall."),[];let c=[];for(let l of r)if(!(i&&l.symbol_id===i))try{let a=JSON.parse(l.embedding),o=n(e,a);o>.25&&c.push({id:l.id,mission_id:l.mission_id,type:l.type,content:l.content,symbol_name:l.symbol_name,file_path:l.file_path,similarity:o,created_at:l.created_at})}catch{}return c.sort((l,a)=>a.similarity-l.similarity).slice(0,t)}delete(e){this.run("DELETE FROM intent_logs WHERE id = ?",e)}update(e,t){let i=Object.keys(t);if(i.length===0)return;let n=i.map(c=>`${c} = ?`).join(", "),r=Object.values(t);r.push(e),this.run(`UPDATE intent_logs SET ${n} WHERE id = ?`,...r)}findRepairableOrphans(){return this.all(`
+      SELECT id, file_path, symbol_name, signature 
+      FROM intent_logs 
+      WHERE symbol_id IS NULL AND symbol_name IS NOT NULL
+    `)}findOrphans(){return this.all(`
+      SELECT il.id, il.symbol_id, il.file_path, il.symbol_name
+      FROM intent_logs il
+      WHERE (il.symbol_id IS NOT NULL AND NOT EXISTS (SELECT 1 FROM exports e WHERE e.id = il.symbol_id))
+         OR (il.symbol_id IS NULL AND il.type != 'lapsed' AND il.type != 'system' AND il.type != 'adr')
+    `)}findLogsForMissingFiles(){return this.all(`
+      SELECT il.id
+      FROM intent_logs il
+      WHERE il.file_path IS NOT NULL
+      AND NOT EXISTS (
+        SELECT 1 FROM files f WHERE f.path = il.file_path
+      )
+    `)}markAsLapsed(e){this.run(`
+      UPDATE intent_logs 
+      SET symbol_id = NULL, 
+          type = 'lapsed',
+          content = 'Lapsed: ' || content
+      WHERE id = ?
+    `,e)}importHeritage(e,t,i,n){this.run(`
+      INSERT INTO intent_logs (type, content, commit_sha, created_at, confidence, mission_id)
+      VALUES ('heritage', ?, ?, ?, ?, NULL)
+    `,e,t,i,n)}countByType(e){return this.get("SELECT COUNT(*) as count FROM intent_logs WHERE type = ?",e)?.count||0}findRawByMission(e){return this.all(`SELECT 
+        id, mission_id, symbol_id, file_path, type, content, confidence, 
+        symbol_name, signature, commit_sha, is_crystallized, crystal_id, 
+        created_at
+       FROM intent_logs
+       WHERE mission_id = ? AND is_crystallized = 0
+         AND type NOT IN ('adr', 'system', 'crystal', 'lapsed')
+       ORDER BY created_at ASC`,e)}findCrystalByMission(e){return this.get(`SELECT 
+        id, mission_id, symbol_id, file_path, type, content, confidence, 
+        symbol_name, signature, commit_sha, is_crystallized, crystal_id, 
+        created_at
+       FROM intent_logs
+       WHERE mission_id = ? AND type = 'crystal'
+       ORDER BY created_at DESC LIMIT 1`,e)}crystallize(e,t){return this.transaction(()=>{let i=this.insert(`INSERT INTO intent_logs (mission_id, type, content, confidence, is_crystallized, symbol_id, file_path, symbol_name, signature, commit_sha)
+         VALUES (?, 'crystal', ?, 1.0, 0, NULL, NULL, NULL, NULL, NULL)`,e,t);return this.run(`UPDATE intent_logs
+         SET is_crystallized = 1, crystal_id = ?
+         WHERE mission_id = ? AND is_crystallized = 0 AND id != ?
+           AND type NOT IN ('adr', 'system', 'crystal', 'lapsed')`,i,e,i),i})}findRawBySymbol(e){return this.all(`SELECT * FROM intent_logs
+       WHERE symbol_id = ? AND mission_id IS NULL AND is_crystallized = 0
+         AND type NOT IN ('adr', 'system', 'crystal', 'lapsed')
+       ORDER BY created_at ASC`,e)}crystallizeBySymbol(e,t){return this.transaction(()=>{let i=this.insert(`INSERT INTO intent_logs (mission_id, symbol_id, type, content, confidence, is_crystallized, file_path, symbol_name, signature, commit_sha)
+         VALUES (NULL, ?, 'crystal', ?, 1.0, 0, NULL, NULL, NULL, NULL)`,e,t);return this.run(`UPDATE intent_logs
+         SET is_crystallized = 1, crystal_id = ?
+         WHERE symbol_id = ? AND mission_id IS NULL AND is_crystallized = 0 AND id != ?
+           AND type NOT IN ('adr', 'system', 'crystal', 'lapsed')`,i,e,i),i})}countByMissions(e){if(e.length===0)return{};let t=e.map(()=>"?").join(","),i=this.all(`SELECT mission_id, COUNT(*) as cnt
+       FROM intent_logs
+       WHERE mission_id IN (${t})
+         AND type NOT IN ('system', 'adr', 'lapsed')
+       GROUP BY mission_id`,...e),n={};for(let r of i)n[r.mission_id]=r.cnt;return n}findMissionsWithBlockers(e){if(e.length===0)return new Set;let t=e.map(()=>"?").join(","),i=this.all(`SELECT DISTINCT mission_id
+       FROM intent_logs
+       WHERE mission_id IN (${t})
+         AND type = 'blocker'`,...e);return new Set(i.map(n=>n.mission_id))}findByMissionPreferCrystal(e,t=50){let i=this.findCrystalByMission(e);if(i){let n=this.all(`SELECT 
+        id, mission_id, symbol_id, file_path, type, content, confidence, 
+        symbol_name, signature, commit_sha, is_crystallized, crystal_id, 
+        created_at
+         FROM intent_logs
+         WHERE mission_id = ? AND is_crystallized = 0 AND type NOT IN ('adr', 'system', 'crystal', 'lapsed')
+           AND created_at > ?
+         ORDER BY created_at DESC LIMIT ?`,e,i.created_at,t-1);return[i,...n]}return this.findByMission(e,t)}async findSemanticTheme(e,t,i=200){let{cosineSimilarity:n}=await Promise.resolve().then(()=>(S(),I)),r=this.findWithEmbeddings(),c=[];for(let l of r)if(s.EMBEDDABLE_TYPES.has(l.type)&&!(t&&l.mission_id!==null&&!t.includes(l.mission_id)))try{let a=JSON.parse(l.embedding),o=n(e,a);o>.35&&c.push({...l,_similarity:o})}catch{}return c.sort((l,a)=>a._similarity-l._similarity).slice(0,i).map(({_similarity:l,...a})=>a)}crystallizeTheme(e,t,i){return this.transaction(()=>{let n=this.insert(`INSERT INTO intent_logs (mission_id, type, content, confidence, is_crystallized, symbol_id, file_path, symbol_name, signature, commit_sha)
+         VALUES (NULL, 'crystal', ?, 1.0, 0, NULL, NULL, NULL, NULL, NULL)`,i);if(t.length>0){let r=t.map(()=>"?").join(",");this.run(`UPDATE intent_logs SET is_crystallized = 1, crystal_id = ? WHERE id IN (${r})`,n,...t)}return n})}async backfillEmbeddings(e=64,t){let{generateEmbeddingsBatch:i}=await Promise.resolve().then(()=>(S(),I)),n=[...s.EMBEDDABLE_TYPES].map(u=>`'${u}'`).join(","),r=this.all(`SELECT * FROM intent_logs WHERE embedding IS NULL AND type IN (${n})`);if(r.length===0)return 0;let c=r.map(u=>s.buildEmbeddingText(u)),l=await i(c,e,t),a=this.db.prepare("UPDATE intent_logs SET embedding = ? WHERE id = ?"),o=0;return this.transaction(()=>{for(let u=0;u<r.length;u++)l[u]&&(a.run(JSON.stringify(l[u]),r[u].id),o++)}),d.info({total:r.length,embedded:o},"Intent log embedding backfill complete"),o}};var Q=class extends E{findByKey(e,t=20){return this.all(`
+      SELECT file_path, key, value, kind
+      FROM configs
+      WHERE key LIKE ? OR value LIKE ?
+      LIMIT ?
+      `,`%${e}%`,`%${e}%`,t)}findByKind(e,t=50){let i="SELECT key, value, kind, file_path FROM configs",n=[];return e&&(i+=" WHERE kind = ?",n.push(e)),i+=" LIMIT ?",n.push(t),this.all(i,...n)}findEnvValue(e){return this.get("SELECT value FROM configs WHERE key LIKE ? OR key = ? LIMIT 1",`%:env:${e}`,e)?.value}countByKind(e){return this.get("SELECT COUNT(*) as count FROM configs WHERE kind = ?",e)?.count||0}getAll(){return this.all("SELECT key, value, kind, file_path FROM configs")}};var X=class extends E{search(e,t=10){return this.all(`
+      SELECT file_path, snippet(content_fts, 1, '<b>', '</b>', '...', 20) as snippet
+      FROM content_fts
+      WHERE content_fts MATCH ?
+      LIMIT ?
+      `,e,t)}};var Pe=500,Z=class extends E{record(e,t,i=null){this.run("INSERT INTO search_history (query, mode, branch) VALUES (?, ?, ?)",e,t,i),this.pruneIfNeeded()}findRecent(e=20){return this.all("SELECT id, query, mode, branch, created_at FROM search_history ORDER BY created_at DESC LIMIT ?",e)}findRecentByQueryPrefix(e,t=10){return e.trim()?this.all(`SELECT id, query, mode, branch, created_at FROM search_history
+       WHERE query LIKE ? ORDER BY created_at DESC LIMIT ?`,`${e}%`,t):this.findRecent(t)}pruneIfNeeded(){(this.get("SELECT COUNT(*) as count FROM search_history")?.count??0)<=Pe||this.run(`DELETE FROM search_history WHERE id NOT IN (
+        SELECT id FROM search_history ORDER BY created_at DESC LIMIT ?
+      )`,Pe)}};var ee=class extends E{getSection(e){return this.get("SELECT section, data, updated_at FROM hologram_snapshot WHERE section = ?",e)}getAllSections(){return this.all("SELECT section, data, updated_at FROM hologram_snapshot ORDER BY section")}upsertSection(e,t){this.run(`
+      INSERT INTO hologram_snapshot (section, data, updated_at)
+      VALUES (?, ?, unixepoch())
+      ON CONFLICT(section) DO UPDATE SET
+        data = excluded.data,
+        updated_at = excluded.updated_at
+    `,e,t)}deleteSection(e){this.run("DELETE FROM hologram_snapshot WHERE section = ?",e)}deleteAll(){this.run("DELETE FROM hologram_snapshot")}hasSection(e){return(this.get("SELECT COUNT(*) as count FROM hologram_snapshot WHERE section = ?",e)?.count??0)>0}};var te=class{static repositoryCache=new Map;static getInstance(e){let t=this.repositoryCache.get(e);if(t){let r=v(e),c=t.files?.database,l=!t.intentLogs||!t.searchHistory||!t.missions||!t.hologram;if(c===r&&r.open&&!l)return t;this.repositoryCache.delete(e)}let i=v(e),n={files:new K(i),exports:new q(i),imports:new j(i),missions:new V(i),intentLogs:new J(i),configs:new Q(i),content:new X(i),searchHistory:new Z(i),hologram:new ee(i)};return this.repositoryCache.set(e,n),n}static closeInstance(e){this.repositoryCache.delete(e),Re(e)}static clearCache(e){this.repositoryCache.delete(e)}};S();var $e=new Set(["FunctionDeclaration","ClassDeclaration","TsInterfaceDeclaration","TsTypeAliasDeclaration","TsEnumDeclaration","HTTP Route","Socket Event","Pub/Sub Topic","function","class","interface","type","enum"]),ze={"HTTP Route":0,"Socket Event":0,"Pub/Sub Topic":0,TsInterfaceDeclaration:1,TsTypeAliasDeclaration:1,TsEnumDeclaration:1,interface:1,type:1,enum:1,FunctionDeclaration:2,function:2,ClassDeclaration:3,class:3};function Ye(s,e,t=[]){let i=t.length>0?`${t.join(" > ")} > ${e.name}`:String(e.name),n=[`Symbol: ${e.name}`,`Kind: ${e.kind??"Unknown"}`,`Scope: ${i}`,`File: ${s}`];return e.signature&&n.push(`Signature: ${String(e.signature)}`),e.doc&&n.push(`Doc: ${String(e.doc)}`),n.join(`
+`)}function Ke(s){return s.map(()=>"?").join(",")}var jt=de.constants.priority.PRIORITY_LOWEST??de.constants.priority.PRIORITY_LOW,ie=process.argv[2];ie||(process.stderr.write(`Ember: repoPath argument missing
+`),process.exit(1));try{de.setPriority(jt)}catch{}function w(s,e){s.transaction(()=>{let t=s.prepare("INSERT OR REPLACE INTO ember_state (key, value, updated_at) VALUES (?, ?, unixepoch())");for(let[i,n]of Object.entries(e))t.run(i,n??null)})()}var qe=100,se=[...$e],je=Ke(se),Gt=se.map(s=>`WHEN '${s.replace(/'/g,"''")}' THEN ${ze[s]??2}`).join(" ").trim(),ne=x({numWorkers:2}),_;async function Vt(){_=v(ie),w(_,{status:"running",pid:String(process.pid),started_at:String(Date.now()),repo_path:ie}),await ne.initialize();let e=_.prepare(`SELECT COUNT(*) as c FROM exports WHERE embedding IS NULL AND kind IN (${je})`).get(...se).c,t=0;w(_,{progress:`0/${e}`});let i=_.prepare(`SELECT id, file_path, name, kind, signature, doc, start_line, end_line
+     FROM exports
+     WHERE embedding IS NULL AND kind IN (${je})
+     ORDER BY CASE kind ${Gt} END
+     LIMIT ${qe}`),n=_.prepare("UPDATE exports SET embedding = ? WHERE id = ?");for(;;){let r=i.all(...se);if(r.length===0)break;let c=r.map(a=>Ye(a.file_path,a)),l=await ne.generateEmbeddings(c,qe);_.transaction(()=>{for(let a=0;a<r.length;a++){let o=l[a];o&&n.run(JSON.stringify(o),r[a].id)}})(),t+=r.length,w(_,{progress:`${t}/${e}`})}try{await te.getInstance(ie).intentLogs.backfillEmbeddings(64)}catch{}w(_,{status:"done",progress:`${t}/${e}`}),await ne.shutdown(),process.exit(0)}async function Ge(){try{_&&w(_,{status:"idle"}),await ne.shutdown()}catch{}process.exit(0)}process.on("SIGTERM",()=>{Ge()});process.on("SIGINT",()=>{Ge()});Vt().catch(s=>{process.stderr.write(`Ember error: ${s instanceof Error?s.message:String(s)}
+`);try{_&&w(_,{status:"error"})}catch{}process.exit(1)});