@precisionutilityguild/liquid-shadow 1.0.2 → 1.0.3

package/dist/entry/cli/index.js

@@ -1,26 +1,17 @@
 #!/usr/bin/env node
-var Wo=Object.create;var Vn=Object.defineProperty;var jo=Object.getOwnPropertyDescriptor;var Uo=Object.getOwnPropertyNames;var Bo=Object.getPrototypeOf,zo=Object.prototype.hasOwnProperty;var Go=(i=>typeof require<"u"?require:typeof Proxy<"u"?new Proxy(i,{get:(e,t)=>(typeof require<"u"?require:e)[t]}):i)(function(i){if(typeof require<"u")return require.apply(this,arguments);throw Error('Dynamic require of "'+i+'" is not supported')});var Q=(i,e)=>()=>(i&&(e=i(i=0)),e);var qo=(i,e)=>()=>(e||i((e={exports:{}}).exports,e),e.exports),Os=(i,e)=>{for(var t in e)Vn(i,t,{get:e[t],enumerable:!0})},Jo=(i,e,t,n)=>{if(e&&typeof e=="object"||typeof e=="function")for(let s of Uo(e))!zo.call(i,s)&&s!==t&&Vn(i,s,{get:()=>e[s],enumerable:!(n=jo(e,s))||n.enumerable});return i};var Yo=(i,e,t)=>(t=i!=null?Wo(Bo(i)):{},Jo(e||!i||!i.__esModule?Vn(t,"default",{value:i,enumerable:!0}):t,i));import Vo from"pino";var Qo,Ko,_,P=Q(()=>{"use strict";Qo={10:"TRACE",20:"DEBUG",30:"INFO",40:"WARN",50:"ERROR",60:"FATAL"},Ko=Vo({level:process.env.LOG_LEVEL||"info",base:{service:"liquid-shadow"},formatters:{level(i,e){return{level:i,severity:Qo[e]??"INFO"}}},transport:{target:"pino-pretty",options:{colorize:!0,translateTime:"HH:MM:ss",destination:2,levelKey:"severity",messageKey:"message"}}}),_=Ko});import St from"fs";import Qn from"path";import{fileURLToPath as ea}from"url";function sa(i){i.exec(`
+var pa=Object.create;var us=Object.defineProperty;var da=Object.getOwnPropertyDescriptor;var ua=Object.getOwnPropertyNames;var ma=Object.getPrototypeOf,ha=Object.prototype.hasOwnProperty;var fa=(i=>typeof require<"u"?require:typeof Proxy<"u"?new Proxy(i,{get:(e,t)=>(typeof require<"u"?require:e)[t]}):i)(function(i){if(typeof require<"u")return require.apply(this,arguments);throw Error('Dynamic require of "'+i+'" is not supported')});var K=(i,e)=>()=>(i&&(e=i(i=0)),e);var ga=(i,e)=>()=>(e||i((e={exports:{}}).exports,e),e.exports),ms=(i,e)=>{for(var t in e)us(i,t,{get:e[t],enumerable:!0})},ya=(i,e,t,n)=>{if(e&&typeof e=="object"||typeof e=="function")for(let s of ua(e))!ha.call(i,s)&&s!==t&&us(i,s,{get:()=>e[s],enumerable:!(n=da(e,s))||n.enumerable});return i};var ba=(i,e,t)=>(t=i!=null?pa(ma(i)):{},ya(e||!i||!i.__esModule?us(t,"default",{value:i,enumerable:!0}):t,i));import _a from"pino";var Ea,Sa,S,W=K(()=>{"use strict";Ea={10:"TRACE",20:"DEBUG",30:"INFO",40:"WARN",50:"ERROR",60:"FATAL"},Sa=_a({level:process.env.LOG_LEVEL||"warn",base:{service:"liquid-shadow"},formatters:{level(i,e){return{level:i,severity:Ea[e]??"INFO"}}},transport:{target:"pino-pretty",options:{colorize:!0,translateTime:"HH:MM:ss",destination:2,levelKey:"severity",messageKey:"message"}}}),S=Sa});import Nt from"fs";import fs from"path";import{fileURLToPath as va}from"url";function ka(i){i.exec(`
     CREATE TABLE IF NOT EXISTS schema_migrations (
       version INTEGER PRIMARY KEY,
       name TEXT NOT NULL,
       applied_at REAL DEFAULT (unixepoch())
     );
-  `)}function ia(i){sa(i);let e=i.prepare("SELECT version FROM schema_migrations ORDER BY version").all();return new Set(e.map(t=>t.version))}function ra(){let i=na;if(!St.readdirSync(i).some(r=>r.match(/^\d{3}_.*\.sql$/))){let r=Qn.resolve(i,"../../data/migrations");St.existsSync(r)&&St.readdirSync(r).some(c=>c.match(/^\d{3}_.*\.sql$/))&&(i=r)}let n=St.readdirSync(i).filter(r=>r.match(/^\d{3}_.*\.sql$/)).sort(),s=[];for(let r of n){let o=r.match(/^(\d{3})_(.+)\.sql$/);if(!o)continue;let c=parseInt(o[1],10),a=o[2],p=St.readFileSync(Qn.join(i,r),"utf-8").split(/^-- DOWN$/m),d=p[0].trim(),u=p[1]?.trim();s.push({version:c,name:a,up:d,down:u})}return s}function oa(i,e){_t.info({version:e.version,name:e.name},"Applying migration"),i.transaction(()=>{i.exec(e.up),i.prepare("INSERT INTO schema_migrations (version, name) VALUES (?, ?)").run(e.version,e.name)})(),_t.info({version:e.version},"Migration applied successfully")}function Us(i){let e=ia(i),n=ra().filter(s=>!e.has(s.version));if(n.length===0){_t.debug("No pending migrations");return}_t.info({count:n.length},"Running pending migrations");for(let s of n)oa(i,s);_t.info("All migrations complete")}var _t,ta,na,Bs=Q(()=>{"use strict";P();_t=_.child({module:"migrations"}),ta=ea(import.meta.url),na=Qn.dirname(ta)});import aa from"better-sqlite3";import Gt from"path";import Kn from"fs";import zs from"crypto";import ca from"os";function Jt(i){let e=ca.homedir(),t=Gt.join(e,".mcp-liquid-shadow"),n=Gt.join(t,"dbs");Kn.existsSync(n)||Kn.mkdirSync(n,{recursive:!0});let s=zs.createHash("sha256").update(i).digest("hex").substring(0,12),o=`${Gt.basename(i).replace(/[^a-zA-Z0-9-_]/g,"_")}_${s}.db`;return Gt.join(n,o)}function la(i,e){let t=e||Jt(i);$e.info({repoPath:i,dbPath:t},"Initializing database");let n=new aa(t);return n.pragma("journal_mode = WAL"),n.pragma("busy_timeout = 5000"),Us(n),qt.set(i,t),Me.set(t,n),$e.info({repoPath:i,dbPath:t},"Database initialized successfully"),n}function Xn(i){return zs.createHash("sha256").update(i,"utf8").digest("hex")}function Gs(i,e){return e?Xn(i)!==e:!0}function ke(i){let e=qt.get(i)||Jt(i),t=Me.get(e);if(t){if(t.open)return t;Me.delete(e)}let n=la(i);return Me.set(e,n),n}function Ve(i){let e=Jt(i);if(!Kn.existsSync(e))return!1;try{let t=ke(i);return t.prepare(`
+  `)}function Ia(i){ka(i);let e=i.prepare("SELECT version FROM schema_migrations ORDER BY version").all();return new Set(e.map(t=>t.version))}function Ca(){let i=Ra;if(!Nt.readdirSync(i).some(r=>r.match(/^\d{3}_.*\.sql$/))){let r=fs.resolve(i,"../../data/migrations");Nt.existsSync(r)&&Nt.readdirSync(r).some(c=>c.match(/^\d{3}_.*\.sql$/))&&(i=r)}let n=Nt.readdirSync(i).filter(r=>r.match(/^\d{3}_.*\.sql$/)).sort(),s=[];for(let r of n){let o=r.match(/^(\d{3})_(.+)\.sql$/);if(!o)continue;let c=parseInt(o[1],10),a=o[2],p=Nt.readFileSync(fs.join(i,r),"utf-8").split(/^-- DOWN$/m),u=p[0].trim(),d=p[1]?.trim();s.push({version:c,name:a,up:u,down:d})}return s}function La(i,e){At.info({version:e.version,name:e.name},"Applying migration"),i.transaction(()=>{i.exec(e.up),i.prepare("INSERT INTO schema_migrations (version, name) VALUES (?, ?)").run(e.version,e.name)})(),At.info({version:e.version},"Migration applied successfully")}function ii(i){let e=Ia(i),n=Ca().filter(s=>!e.has(s.version));if(n.length===0){At.debug("No pending migrations");return}At.info({count:n.length},"Running pending migrations");for(let s of n)La(i,s);At.info("All migrations complete")}var At,Ta,Ra,ri=K(()=>{"use strict";W();At=S.child({module:"migrations"}),Ta=va(import.meta.url),Ra=fs.dirname(Ta)});import $a from"better-sqlite3";import on from"path";import gs from"fs";import oi from"crypto";import Na from"os";function cn(i){let e=Na.homedir(),t=on.join(e,".mcp-liquid-shadow"),n=on.join(t,"dbs");gs.existsSync(n)||gs.mkdirSync(n,{recursive:!0});let s=oi.createHash("sha256").update(i).digest("hex").substring(0,12),o=`${on.basename(i).replace(/[^a-zA-Z0-9-_]/g,"_")}_${s}.db`;return on.join(n,o)}function Aa(i,e){let t=e||cn(i);Fe.debug({repoPath:i,dbPath:t},"Initializing database");let n=new $a(t);return n.pragma("journal_mode = WAL"),n.pragma("busy_timeout = 5000"),ii(n),an.set(i,t),Ge.set(t,n),Fe.debug({repoPath:i,dbPath:t},"Database initialized successfully"),n}function mt(i){return oi.createHash("sha256").update(i,"utf8").digest("hex")}function ai(i,e){return e?mt(i)!==e:!0}function We(i){let e=an.get(i)||cn(i),t=Ge.get(e);if(t){if(t.open)return t;Ge.delete(e)}let n=Aa(i);return Ge.set(e,n),n}function He(i){let e=cn(i);if(!gs.existsSync(e))return!1;try{let t=We(i);return t.prepare(`
       SELECT value FROM index_metadata
       WHERE key = 'index_completed'
-    `).get()?.value==="true"?!0:t.prepare("SELECT COUNT(*) as count FROM files").get().count>0}catch(t){return $e.debug({repoPath:i,error:t},"Error checking index status"),!1}}function Zn(i,e){let t=ke(i);t.prepare(`
-    INSERT OR REPLACE INTO index_metadata (key, value, updated_at)
-    VALUES ('index_completed', 'true', unixepoch())
-  `).run(),t.prepare(`
-    INSERT OR REPLACE INTO index_metadata (key, value, updated_at)
-    VALUES ('last_indexed_at', ?, unixepoch())
-  `).run(Date.now().toString()),e&&t.prepare(`
-      INSERT OR REPLACE INTO index_metadata (key, value, updated_at)
-      VALUES ('last_indexed_commit', ?, unixepoch())
-    `).run(e),$e.info({repoPath:i,commitSha:e},"Repository marked as indexed")}function xt(i){try{return ke(i).prepare(`
+    `).get()?.value==="true"?!0:t.prepare("SELECT COUNT(*) as count FROM files").get().count>0}catch(t){return Fe.debug({repoPath:i,error:t},"Error checking index status"),!1}}function ys(i,e){let t=We(i),n=t.prepare("INSERT OR REPLACE INTO index_metadata (key, value, updated_at) VALUES (?, ?, unixepoch())");t.transaction(()=>{n.run("index_completed","true"),n.run("last_indexed_at",Date.now().toString()),e&&n.run("last_indexed_commit",e)})(),Fe.debug({repoPath:i,commitSha:e},"Repository marked as indexed")}function Pt(i){try{return We(i).prepare(`
       SELECT value FROM index_metadata
       WHERE key = 'last_indexed_commit'
-    `).get()?.value||null}catch(e){return $e.debug({repoPath:i,error:e},"Error getting last indexed commit"),null}}function Yt(i){let e=qt.get(i)||Jt(i),t=Me.get(e);t&&(t.open&&($e.info({repoPath:i,dbPath:e},"Closing database connection"),t.close()),Me.delete(e)),qt.delete(i)}function qs(){for(let[i,e]of Me.entries())try{e.open&&($e.info({dbPath:i},"Closing database connection"),e.close())}catch(t){$e.error({dbPath:i,err:t},"Error closing database execution")}Me.clear()}var $e,Me,qt,Js,Qe=Q(()=>{"use strict";P();Bs();$e=_.child({module:"db"});Me=new Map,qt=new Map;process.on("exit",()=>qs());Js=i=>{$e.info({signal:i},"Received termination signal, closing databases"),qs(),process.exit(0)};process.on("SIGINT",()=>Js("SIGINT"));process.on("SIGTERM",()=>Js("SIGTERM"))});var X,Ee=Q(()=>{"use strict";X=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)()}}});import pa from"path";var Vt,Ys=Q(()=>{"use strict";Ee();Vt=class extends X{findByPath(e){return this.get("SELECT * FROM files WHERE path = ?",e)}findAll(e){let t="SELECT * FROM files ORDER BY path ASC";return e&&(t+=` LIMIT ${e}`),this.all(t)}getAllPaths(){return this.all("SELECT path FROM files").map(t=>t.path)}findInSubPath(e,t){let n=pa.resolve(e,t),s=n.endsWith("/")?n:n+"/";return this.all(`
+    `).get()?.value||null}catch(e){return Fe.debug({repoPath:i,error:e},"Error getting last indexed commit"),null}}function ln(i){let e=an.get(i)||cn(i),t=Ge.get(e);t&&(t.open&&(Fe.debug({repoPath:i,dbPath:e},"Closing database connection"),t.close()),Ge.delete(e)),an.delete(i)}function ci(){for(let[i,e]of Ge.entries())try{e.open&&(Fe.debug({dbPath:i},"Closing database connection"),e.close())}catch(t){Fe.error({dbPath:i,err:t},"Error closing database execution")}Ge.clear()}var Fe,Ge,an,li,qe=K(()=>{"use strict";W();ri();Fe=S.child({module:"db"});Ge=new Map,an=new Map;process.on("exit",()=>ci());li=i=>{Fe.debug({signal:i},"Received termination signal, closing databases"),ci(),process.exit(0)};process.on("SIGINT",()=>li("SIGINT"));process.on("SIGTERM",()=>li("SIGTERM"))});var te,Le=K(()=>{"use strict";te=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)()}}});import Pa from"path";var pn,pi=K(()=>{"use strict";Le();pn=class extends te{findByPath(e){return this.get("SELECT * FROM files WHERE path = ?",e)}findAll(e){let t="SELECT * FROM files ORDER BY path ASC";return e&&(t+=` LIMIT ${e}`),this.all(t)}getAllPaths(){return this.all("SELECT path FROM files").map(t=>t.path)}findInSubPath(e,t){let n=Pa.resolve(e,t),s=n.endsWith("/")?n:n+"/";return this.all(`
       SELECT * FROM files 
       WHERE (path LIKE ? OR path = ?)
       ORDER BY path ASC
@@ -57,14 +48,14 @@ var Wo=Object.create;var Vn=Object.defineProperty;var jo=Object.getOwnPropertyDe
         OR m.id IN (${e.length>0?e.join(","):"-1"})
       )
       AND ws.file_path IS NOT NULL
-    `,r=[];t&&r.push(t);let o=this.all(s,...r);for(let l of o){n[l.file_path]||(n[l.file_path]={score:1,reasons:[]});let p=l.status==="in-progress"||l.status==="verifying"?1:.5;n[l.file_path].score+=p;let d=l.status==="in-progress"||l.status==="verifying"?"Working Set":"Lineage Bleed";n[l.file_path].reasons.push(`${d}: ${l.mission_name}`)}let c=Math.floor(Date.now()/1e3)-86400,a=this.all(`
+    `,r=[];t&&r.push(t);let o=this.all(s,...r);for(let l of o){n[l.file_path]||(n[l.file_path]={score:1,reasons:[]});let p=l.status==="in-progress"||l.status==="verifying"?1:.5;n[l.file_path].score+=p;let u=l.status==="in-progress"||l.status==="verifying"?"Working Set":"Lineage Bleed";n[l.file_path].reasons.push(`${u}: ${l.mission_name}`)}let c=Math.floor(Date.now()/1e3)-86400,a=this.all(`
       SELECT file_path, type, mission_id
       FROM intent_logs
       WHERE (created_at > ? OR mission_id IN (${e.length>0?e.join(","):"-1"}))
       AND file_path IS NOT NULL
       ORDER BY created_at DESC
       LIMIT 100
-    `,c);for(let l of a){n[l.file_path]||(n[l.file_path]={score:1,reasons:[]});let p=l.mission_id?e.includes(l.mission_id):!1,d=p?.1:.2;n[l.file_path].score<5&&(n[l.file_path].score+=d);let u=p?`Lineage Intent: ${l.type}`:`Recent Intent: ${l.type}`;!n[l.file_path].reasons.includes(u)&&n[l.file_path].reasons.length<5&&n[l.file_path].reasons.push(u)}return n}getCount(){return this.get("SELECT COUNT(*) as count FROM files")?.count||0}getTopDirectories(e,t=8){return this.all(`
+    `,c);for(let l of a){n[l.file_path]||(n[l.file_path]={score:1,reasons:[]});let p=l.mission_id?e.includes(l.mission_id):!1,u=p?.1:.2;n[l.file_path].score<5&&(n[l.file_path].score+=u);let d=p?`Lineage Intent: ${l.type}`:`Recent Intent: ${l.type}`;!n[l.file_path].reasons.includes(d)&&n[l.file_path].reasons.length<5&&n[l.file_path].reasons.push(d)}return n}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
@@ -87,8 +78,8 @@ var Wo=Object.create;var Vn=Object.defineProperty;var jo=Object.getOwnPropertyDe
             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(s=>{for(let r of s)t.run(r)})(e)}updateMtime(e,t){this.run("UPDATE files SET mtime = ? WHERE path = ?",t,e)}batchSaveIndexResults(e,t,n,s){let r=this.db.prepare("DELETE FROM exports WHERE file_path = ?"),o=this.db.prepare("DELETE FROM imports WHERE file_path = ?"),c=this.db.prepare("DELETE FROM configs WHERE file_path = ?"),a=this.db.prepare("DELETE FROM file_content WHERE file_path = ?"),l=this.db.prepare("DELETE FROM event_synapses 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 (?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?)"),d=this.db.prepare("INSERT INTO imports (file_path, module_specifier, imported_symbols, resolved_path) VALUES (?, ?, ?, ?)"),u=this.db.prepare("INSERT INTO configs (file_path, key, value, kind) VALUES (?, ?, ?, ?)"),m=this.db.prepare("INSERT INTO file_content (file_path, content) VALUES (?, ?)"),f=this.db.prepare("INSERT INTO event_synapses (file_path, type, name, direction, line_number, code_snippet) VALUES (?, ?, ?, ?, ?, ?)"),h=this.db.prepare(`
-        INSERT INTO files (path, mtime, last_scanned_at, classification, summary, embedding, content_hash) 
+    `,e,e)}deletePaths(e){if(e.length===0)return;let t=this.db.prepare("DELETE FROM files WHERE path = ?");this.db.transaction(s=>{for(let r of s)t.run(r)})(e)}updateMtime(e,t){this.run("UPDATE files SET mtime = ? WHERE path = ?",t,e)}batchSaveIndexResults(e,t,n,s){let r=this.db.prepare("DELETE FROM exports WHERE file_path = ?"),o=this.db.prepare("DELETE FROM imports WHERE file_path = ?"),c=this.db.prepare("DELETE FROM configs WHERE file_path = ?"),a=this.db.prepare("DELETE FROM file_content WHERE file_path = ?"),l=this.db.prepare("DELETE FROM event_synapses 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 (?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?)"),u=this.db.prepare("INSERT INTO imports (file_path, module_specifier, imported_symbols, resolved_path) VALUES (?, ?, ?, ?)"),d=this.db.prepare("INSERT INTO configs (file_path, key, value, kind) VALUES (?, ?, ?, ?)"),m=this.db.prepare("INSERT INTO file_content (file_path, content) VALUES (?, ?)"),h=this.db.prepare("INSERT INTO event_synapses (file_path, type, name, direction, line_number, code_snippet) VALUES (?, ?, ?, ?, ?, ?)"),g=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,
@@ -97,7 +88,7 @@ var Wo=Object.create;var Vn=Object.defineProperty;var jo=Object.getOwnPropertyDe
             summary=excluded.summary,
             embedding=excluded.embedding,
             content_hash=excluded.content_hash
-    `);this.db.transaction(y=>{for(let g of y){let{meta:S,exports:R,imports:w,configs:T,events:v,content:k,classification:F,summary:x,embedding:I}=g;r.run(S.path),o.run(S.path),c.run(S.path),a.run(S.path),l.run(S.path);let M=k?n(k):null;if(h.run(S.path,S.mtime,Date.now(),F||"Unknown",x||"",I?JSON.stringify(I):null,M),R){let $=(j,H,N)=>{for(let L of H){let A=L.embedding?JSON.stringify(L.embedding):null,D=p.run(j,L.name,L.kind,L.signature,L.doc||"",L.line,L.endLine||L.line,L.classification||"Other",L.capabilities||"[]",N,A);L.members&&L.members.length>0&&$(j,L.members,D.lastInsertRowid)}};$(S.path,R,null)}if(w)for(let $ of w){let j=s($.module,S.path,t);d.run(S.path,$.module,$.name,j)}if(T)for(let $ of T)u.run(S.path,$.key,$.value,$.kind);if(k!==void 0&&m.run(S.path,k),v)for(let $ of v)f.run(S.path,$.type,$.name,$.direction,$.line,$.snippet)}})(e)}getLatestScanTime(){return this.get("SELECT MAX(last_scanned_at) as t FROM files")?.t||null}}});var Qt,Vs=Q(()=>{"use strict";Ee();Qt=class extends X{findByNameAndFile(e,t){return this.all("SELECT * FROM exports WHERE file_path = ? AND name = ?",t,e)}findByNameGlobal(e){return this.all("SELECT * FROM exports WHERE name = ?",e)}findAtLine(e,t){return this.get(`
+    `),_=this.db.transaction(y=>{for(let E of y){let{meta:w,exports:x,imports:v,configs:k,events:N,content:O,classification:T,summary:I,embedding:U,contentHash:H}=E;r.run(w.path),o.run(w.path),c.run(w.path),a.run(w.path),l.run(w.path);let P=H??(O&&n?n(O):null);if(g.run(w.path,w.mtime,Date.now(),T||"Unknown",I||"",U?JSON.stringify(U):null,P),x){let R=(A,D,$)=>{for(let L of D){let Y=L.embedding?JSON.stringify(L.embedding):null,he=p.run(A,L.name,L.kind,L.signature,L.doc||"",L.line,L.endLine||L.line,L.classification||"Other",L.capabilities||"[]",$,Y);L.members&&L.members.length>0&&R(A,L.members,he.lastInsertRowid)}};R(w.path,x,null)}if(v)for(let R of v){let A=R.resolved_path!==void 0?R.resolved_path:s?.(R.module,w.path,t)??"";u.run(w.path,R.module,R.name,A)}if(k)for(let R of k)d.run(w.path,R.key,R.value,R.kind);if(O!==void 0&&m.run(w.path,O),N)for(let R of N)h.run(w.path,R.type,R.name,R.direction,R.line,R.snippet)}}),b=500;for(let y=0;y<e.length;y+=b)_(e.slice(y,y+b))}getLatestScanTime(){return this.get("SELECT MAX(last_scanned_at) as t FROM files")?.t||null}}});var dn,di=K(()=>{"use strict";Le();dn=class extends te{findByNameAndFile(e,t){return this.all("SELECT * FROM exports WHERE file_path = ? AND name = ?",t,e)}findByNameGlobal(e){return this.all("SELECT * FROM exports WHERE name = ?",e)}findAtLine(e,t){return this.get(`
       SELECT * FROM exports 
       WHERE file_path = ? AND start_line <= ? AND end_line >= ?
       ORDER BY (end_line - start_line) ASC -- Get innermost symbol
@@ -188,7 +179,7 @@ var Wo=Object.create;var Vn=Object.defineProperty;var jo=Object.getOwnPropertyDe
       SELECT * FROM exports 
       WHERE lower(name) LIKE ?
       LIMIT ?
-    `,`%${e.toLowerCase()}%`,t)}getAllNames(e=5e3){return this.all("SELECT DISTINCT name FROM exports WHERE parent_id IS NULL LIMIT ?",e).map(n=>n.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:n=!1,includeMigrations:s=!1,includeFixtures:r=!1,excludePatterns:o=[],confidenceThreshold:c="all"}=e,a=[];n||(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.%'")),s||(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 m of o){let f=m.replace(/\*\*/g,"%").replace(/\*/g,"%").replace(/\?/g,"_");a.push(`e.file_path NOT LIKE '${f}'`)}let l=a.length>0?`AND ${a.join(" AND ")}`:"",d=this.all(`
+    `,`%${e.toLowerCase()}%`,t)}getAllNames(e=5e3){return this.all("SELECT DISTINCT name FROM exports WHERE parent_id IS NULL LIMIT ?",e).map(n=>n.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:n=!1,includeMigrations:s=!1,includeFixtures:r=!1,excludePatterns:o=[],confidenceThreshold:c="all"}=e,a=[];n||(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.%'")),s||(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 m of o){let h=m.replace(/\*\*/g,"%").replace(/\*/g,"%").replace(/\?/g,"_");a.push(`e.file_path NOT LIKE '${h}'`)}let l=a.length>0?`AND ${a.join(" AND ")}`:"",u=this.all(`
         SELECT e.name, e.kind, e.file_path, e.start_line
         FROM exports e
         WHERE e.kind IN (
@@ -202,7 +193,7 @@ var Wo=Object.create;var Vn=Object.defineProperty;var jo=Object.getOwnPropertyDe
         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).map(m=>{let{confidence:f,reason:h}=this.scoreDeadExportConfidence(m);return{...m,confidence:f,reason:h}}),u=d;return c==="high"?u=d.filter(m=>m.confidence==="high"):c==="medium"&&(u=d.filter(m=>m.confidence==="high"||m.confidence==="medium")),u.slice(0,t)}scoreDeadExportConfidence(e){let t=e.file_path.toLowerCase(),n=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"}:n.startsWith("create")||n.endsWith("Factory")||n.endsWith("Builder")?{confidence:"medium",reason:"Factory/builder pattern - may be used dynamically"}:n.startsWith("use")&&n.length>3?{confidence:"medium",reason:"Hook pattern - may be used in components"}:{confidence:"high",reason:"No detected usage"}}getGravityMap(e=[],t){let n={},s=`
+    `,t*2).map(m=>{let{confidence:h,reason:g}=this.scoreDeadExportConfidence(m);return{...m,confidence:h,reason:g}}),d=u;return c==="high"?d=u.filter(m=>m.confidence==="high"):c==="medium"&&(d=u.filter(m=>m.confidence==="high"||m.confidence==="medium")),d.slice(0,t)}scoreDeadExportConfidence(e){let t=e.file_path.toLowerCase(),n=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"}:n.startsWith("create")||n.endsWith("Factory")||n.endsWith("Builder")?{confidence:"medium",reason:"Factory/builder pattern - may be used dynamically"}:n.startsWith("use")&&n.length>3?{confidence:"medium",reason:"Hook pattern - may be used in components"}:{confidence:"high",reason:"No detected usage"}}getGravityMap(e=[],t){let n={},s=`
       SELECT ws.symbol_id, m.name as mission_name, m.status
       FROM working_set ws
       JOIN missions m ON ws.mission_id = m.id
@@ -211,14 +202,14 @@ var Wo=Object.create;var Vn=Object.defineProperty;var jo=Object.getOwnPropertyDe
         OR m.id IN (${e.length>0?e.join(","):"-1"})
       )
       AND ws.symbol_id IS NOT NULL
-    `,r=[];t&&r.push(t);let o=this.all(s,...r);for(let l of o){n[l.symbol_id]||(n[l.symbol_id]={score:1,reasons:[]});let p=l.status==="in-progress"||l.status==="verifying"?1:.5;n[l.symbol_id].score+=p;let d=l.status==="in-progress"||l.status==="verifying"?"Working Set":"Lineage Bleed";n[l.symbol_id].reasons.push(`${d}: ${l.mission_name}`)}let c=Math.floor(Date.now()/1e3)-86400,a=this.all(`
+    `,r=[];t&&r.push(t);let o=this.all(s,...r);for(let l of o){n[l.symbol_id]||(n[l.symbol_id]={score:1,reasons:[]});let p=l.status==="in-progress"||l.status==="verifying"?1:.5;n[l.symbol_id].score+=p;let u=l.status==="in-progress"||l.status==="verifying"?"Working Set":"Lineage Bleed";n[l.symbol_id].reasons.push(`${u}: ${l.mission_name}`)}let c=Math.floor(Date.now()/1e3)-86400,a=this.all(`
       SELECT symbol_id, type, mission_id
       FROM intent_logs
       WHERE (created_at > ? OR mission_id IN (${e.length>0?e.join(","):"-1"}))
       AND symbol_id IS NOT NULL
       ORDER BY created_at DESC
       LIMIT 200
-    `,c);for(let l of a){n[l.symbol_id]||(n[l.symbol_id]={score:1,reasons:[]});let p=l.mission_id?e.includes(l.mission_id):!1,d=p?.1:.2;n[l.symbol_id].score<5&&(n[l.symbol_id].score+=d);let u=p?`Lineage Intent: ${l.type}`:`Recent Intent: ${l.type}`;!n[l.symbol_id].reasons.includes(u)&&n[l.symbol_id].reasons.length<5&&n[l.symbol_id].reasons.push(u)}return n}getCount(){return this.get("SELECT COUNT(*) as count FROM exports")?.count||0}getKindDistribution(e=5){return this.all(`
+    `,c);for(let l of a){n[l.symbol_id]||(n[l.symbol_id]={score:1,reasons:[]});let p=l.mission_id?e.includes(l.mission_id):!1,u=p?.1:.2;n[l.symbol_id].score<5&&(n[l.symbol_id].score+=u);let d=p?`Lineage Intent: ${l.type}`:`Recent Intent: ${l.type}`;!n[l.symbol_id].reasons.includes(d)&&n[l.symbol_id].reasons.length<5&&n[l.symbol_id].reasons.push(d)}return n}getCount(){return this.get("SELECT COUNT(*) as count FROM exports")?.count||0}getKindDistribution(e=5){return this.all(`
             SELECT kind, COUNT(*) as c 
             FROM exports 
             WHERE kind IS NOT NULL AND kind != ''
@@ -231,7 +222,7 @@ var Wo=Object.create;var Vn=Object.defineProperty;var jo=Object.getOwnPropertyDe
          OR name LIKE ? 
          OR name LIKE ?
       LIMIT 10
-      `,e,`%.${e}`,`%::${e}`)}}});var Qs,Ks=Q(()=>{"use strict";Qs=`
+      `,e,`%.${e}`,`%::${e}`)}}});var ui,mi=K(()=>{"use strict";ui=`
 WITH RECURSIVE dependency_chain AS (
     -- Base case: Direct dependents of the target symbol
     -- Meaning: Files that import the file where the symbol is defined
@@ -282,7 +273,7 @@ SELECT DISTINCT
     dc.imported_symbols
 FROM dependency_chain dc
 ORDER BY dc.depth, dc.consumer_path;
-`});var Kt,Xs=Q(()=>{"use strict";Ee();Ks();Kt=class extends X{findByFile(e){return this.all("SELECT * FROM imports WHERE file_path = ?",e)}findByFiles(e){if(e.length===0)return[];let t=e.map(()=>"?").join(", ");return this.all(`SELECT * FROM imports WHERE file_path IN (${t}) ORDER BY file_path`,...e)}getAllResolved(){return this.all(`
+`});var un,hi=K(()=>{"use strict";Le();mi();un=class extends te{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 (${t}) ORDER BY file_path`,...e)}getAllResolved(){return this.all(`
             SELECT * FROM imports 
             WHERE resolved_path IS NOT NULL AND resolved_path != ''
         `)}findDependents(e){return this.all("SELECT * FROM imports WHERE resolved_path = ?",e)}countByFile(e){return this.get("SELECT COUNT(*) as count FROM imports WHERE file_path = ?",e)?.count||0}countDependents(e){return this.get("SELECT COUNT(*) as count FROM imports WHERE resolved_path = ?",e)?.count||0}getImportsForFile(e){return this.all("SELECT module_specifier, imported_symbols, resolved_path FROM imports WHERE file_path = ?",e)}findImportSource(e,t){return this.get(`
@@ -308,7 +299,7 @@ ORDER BY dc.depth, dc.consumer_path;
             SELECT COUNT(*) as count FROM imports 
             WHERE resolved_path IN (${n})
             AND (imported_symbols LIKE ? OR imported_symbols = '' OR imported_symbols = '*')
-        `,...e,`%${t}%`)?.count||0}findImpactDependents(e,t,n){return this.all(Qs,e,t,n,t)}getCount(){return this.get("SELECT COUNT(*) as count FROM imports")?.count||0}}});var Xt,Zs=Q(()=>{"use strict";Ee();Xt=class extends X{findById(e){return this.get("SELECT * FROM missions WHERE id = ?",e)}findByIds(e){if(e.length===0)return[];let t=e.map(()=>"?").join(", ");return this.all(`SELECT * FROM missions WHERE id IN (${t})`,...e)}findActive(e){let t="SELECT * FROM missions WHERE status IN ('in-progress', 'planned', 'verifying')",n=[];return e&&(t+=" AND git_branch = ?",n.push(e)),t+=` ORDER BY 
+        `,...e,`%${t}%`)?.count||0}findImpactDependents(e,t,n){return this.all(ui,e,t,n,t)}getCount(){return this.get("SELECT COUNT(*) as count FROM imports")?.count||0}}});var mn,fi=K(()=>{"use strict";Le();mn=class extends te{findById(e){return this.get("SELECT * FROM missions WHERE id = ?",e)}findByIds(e){if(e.length===0)return[];let t=e.map(()=>"?").join(", ");return this.all(`SELECT * FROM missions WHERE id IN (${t})`,...e)}findActive(e){let t="SELECT * FROM missions WHERE status IN ('in-progress', 'planned', 'verifying')",n=[];return e&&(t+=" AND git_branch = ?",n.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,...n)}findAll(e){let t="SELECT * FROM missions",n=[];return e&&(t+=" WHERE status = ?",n.push(e)),t+=` ORDER BY 
         CASE WHEN status = 'in-progress' THEN 0 WHEN status = 'verifying' THEN 1 ELSE 2 END, 
@@ -338,7 +329,7 @@ ORDER BY dc.depth, dc.consumer_path;
       SELECT AVG(updated_at - created_at) AS avg_duration
       FROM missions
       WHERE status = 'completed' AND updated_at > created_at
-    `),s=n?.avg_duration!=null?Math.round(n.avg_duration):null,r=Math.floor(Date.now()/1e3)-168*3600,o=Math.floor(Date.now()/1e3)-720*3600,c=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 >= ?",o),l=c?.n??0,p=a?.n??0,d=`${l} completed in last 7 days, ${p} in last 30 days.`;if(s!=null){let u=Math.round(s/60);d+=` Avg mission duration: ${u} min.`}return{completionRate:t,averageDurationSeconds:s,completedLast7Days:l,completedLast30Days:p,velocityNote:d}}suspendByBranch(e){this.run(`UPDATE missions 
+    `),s=n?.avg_duration!=null?Math.round(n.avg_duration):null,r=Math.floor(Date.now()/1e3)-168*3600,o=Math.floor(Date.now()/1e3)-720*3600,c=this.get("SELECT COUNT(*) AS n FROM missions WHERE status = 'completed' AND updated_at >= ?",r),a=this.get("SELECT COUNT(*) AS n FROM missions WHERE status = 'completed' AND updated_at >= ?",o),l=c?.n??0,p=a?.n??0,u=`${l} completed in last 7 days, ${p} in last 30 days.`;if(s!=null){let d=Math.round(s/60);u+=` Avg mission duration: ${d} min.`}return{completionRate:t,averageDurationSeconds:s,completedLast7Days:l,completedLast30Days:p,velocityNote:u}}suspendByBranch(e){this.run(`UPDATE missions 
        SET status = 'suspended', updated_at = unixepoch() 
        WHERE git_branch = ? AND status IN ('in-progress', 'planned', 'verifying')`,e)}resumeByBranch(e){this.run(`UPDATE missions 
        SET status = 'in-progress', updated_at = unixepoch() 
@@ -363,7 +354,7 @@ ORDER BY dc.depth, dc.consumer_path;
         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")}}});var Zt,ei=Q(()=>{"use strict";Ee();Zt=class extends X{findByMission(e,t=50){return this.all(`
+      `,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")}}});import{fileURLToPath as Ma}from"node:url";import{dirname as bs,join as yi,resolve as Da}from"node:path";import{existsSync as Oa}from"node:fs";function Wa(){let i=gi;for(;i!==bs(i);){if(Oa(yi(i,"package.json")))return i;i=bs(i)}return Da(gi,"..","..")}function ht(...i){return yi(Wa(),...i)}var Fa,gi,hn=K(()=>{"use strict";Fa=Ma(import.meta.url),gi=bs(Fa)});import{Worker as Ha}from"node:worker_threads";import{cpus as Ua}from"node:os";import{fileURLToPath as ja}from"node:url";import{dirname as za,join as bi}from"node:path";import{existsSync as _i}from"node:fs";function Ba(){if(Si.endsWith(".ts")){let e=bi(Ei,"worker.ts");if(_i(e))return e}let i=bi(Ei,"worker.js");return _i(i)?i:ht("dist/logic/domain/embeddings/worker.js")}function it(i){return ft||(ft=new gt(i)),ft}async function Mt(){ft&&(await ft.shutdown(),ft=null)}var Si,Ei,gt,ft,wi=K(()=>{"use strict";W();hn();Si=ja(import.meta.url),Ei=za(Si);gt=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(4,Ua().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{S.info({numWorkers:this.numWorkers},"Initializing embedding worker pool");let t=new Promise((n,s)=>{e=setTimeout(()=>s(new Error(`Worker pool initialization timed out after ${this.initTimeout}ms`)),this.initTimeout)});if(await Promise.race([this._initializeWorkers(),t]),e&&clearTimeout(e),this.shutdownRequested){this.initialized=!1,this.initPromise=void 0,S.debug("Initialization completed but shutdown was requested");return}this.initialized=!0,S.info({numWorkers:this.workers.length},"Embedding worker pool ready")}catch(t){throw e&&clearTimeout(e),this.initPromise=void 0,this.initialized=!1,await this.shutdown(),t}}async _initializeWorkers(){let e=Ba();S.debug({workerPath:e},"Resolved worker path");let t=[];for(let n=0;n<this.numWorkers;n++)n>0&&await new Promise(s=>setTimeout(s,25)),t.push(this.createWorker(e,n));await Promise.all(t)}async createWorker(e,t){return new Promise((n,s)=>{let r=setTimeout(()=>{s(new Error(`Worker ${t} initialization timed out`))},this.initTimeout),o=new Ha(e,{workerData:{cacheDir:this.cacheDir},execArgv:process.execArgv}),c={worker:o,busy:!1,currentTaskId:null};o.on("message",a=>{if(a.type==="ready"){if(clearTimeout(r),this.shutdownRequested){S.debug({workerIndex:t},"Worker ready but shutdown requested, terminating"),o.terminate().catch(()=>{}),n();return}this.workers.push(c),S.debug({workerIndex:t},"Worker ready"),n()}else a.type==="result"&&a.id?this.handleTaskComplete(c,a.id,a.embeddings||[]):a.type==="error"&&a.id&&this.handleTaskError(c,a.id,new Error(a.error||"Unknown error"))}),o.on("error",a=>{if(clearTimeout(r),S.error({err:a,workerIndex:t},"Worker error"),c.currentTaskId&&this.handleTaskError(c,c.currentTaskId,a),!this.initialized){s(a);return}let l=this.workers.indexOf(c);l!==-1&&this.workers.splice(l,1),!this.shutdownRequested&&this.initialized&&this.createWorker(e,t).catch(p=>{S.error({err:p},"Failed to replace crashed worker")})}),o.on("exit",a=>{a!==0&&!this.shutdownRequested&&S.warn({workerIndex:t,code:a},"Worker exited unexpectedly")})})}handleTaskComplete(e,t,n){let s=this.pendingTasks.get(t);s&&(this.pendingTasks.delete(t),s.resolve(n)),e.busy=!1,e.currentTaskId=null,this.processQueue()}handleTaskError(e,t,n){let s=this.pendingTasks.get(t);s&&(this.pendingTasks.delete(t),s.reject(n)),e.busy=!1,e.currentTaskId=null,this.processQueue()}processQueue(){if(this.taskQueue.length===0)return;let e=this.workers.find(n=>!n.busy);if(!e)return;let t=this.taskQueue.shift();t&&(e.busy=!0,e.currentTaskId=t.id,this.pendingTasks.set(t.id,t),e.worker.postMessage({type:"embed",id:t.id,texts:t.texts}))}async generateEmbeddings(e,t=128,n){if(this.initialized||await this.initialize(),e.length===0)return[];let s=[];for(let l=0;l<e.length;l+=t)s.push(e.slice(l,l+t));let r=new Array(s.length),o=0,c=s.map((l,p)=>new Promise((u,d)=>{let h={id:`task_${++this.taskIdCounter}`,texts:l,resolve:g=>{if(r[p]=g,o++,n){let _=Math.min(o*t,e.length);n(_,e.length)}u()},reject:g=>{if(r[p]=new Array(l.length).fill(null),o++,S.warn({err:g,chunkIndex:p},"Chunk embedding failed"),n){let _=Math.min(o*t,e.length);n(_,e.length)}u()}};this.taskQueue.push(h),this.processQueue()}));await Promise.all(c);let a=[];for(let l of r)a.push(...l);return S.info({total:e.length,successful:a.filter(l=>l!==null).length,workers:this.workers.length},"Parallel embedding generation complete"),a}get workerCount(){return this.workers.length}get busyWorkers(){return this.workers.filter(e=>e.busy).length}get queueSize(){return this.taskQueue.length}get isInitialized(){return this.initialized}async shutdown(){if(this.shutdownRequested=!0,this.initPromise)try{await this.initPromise}catch{}if(!this.initialized&&this.workers.length===0){this.shutdownRequested=!1,this.initPromise=void 0;return}S.info({numWorkers:this.workers.length},"Shutting down embedding worker pool");let e=this.workers.map(t=>new Promise(n=>{t.worker.postMessage({type:"shutdown"}),t.worker.once("exit",()=>n()),setTimeout(()=>{t.worker.terminate().then(()=>n())},5e3)}));await Promise.all(e),this.workers=[],this.taskQueue=[],this.pendingTasks.clear(),this.initialized=!1,this.shutdownRequested=!1,S.info("Embedding worker pool shutdown complete")}},ft=null});var Ss={};ms(Ss,{EmbeddingPriorityQueue:()=>fn,EmbeddingWorkerPool:()=>gt,cosineSimilarity:()=>Ft,generateEmbedding:()=>gn,generateEmbeddingsBatch:()=>yn,getDefaultPool:()=>it,setUseWorkerThreads:()=>Ot,shutdownDefaultPool:()=>Mt});async function Ga(){return Dt||(Dt=await import("@xenova/transformers"),Dt.env.cacheDir="./.cache",Dt.env.allowLocalModels=!0),Dt}function Ot(i){Es=i,S.info({useWorkerThreads:i},"Worker thread mode updated")}async function vi(){return _s||(_s=(async()=>{S.info("Loading embedding model (all-MiniLM-L6-v2)...");let{pipeline:i}=await Ga();return await i("feature-extraction","Xenova/all-MiniLM-L6-v2")})()),_s}async function gn(i){try{let t=await(await vi())(i,{pooling:"mean",normalize:!0});return Array.from(t.data)}catch(e){return S.error({err:e},"Failed to generate embedding"),null}}async function yn(i,e=xi,t){return i.length===0?[]:Es?it().generateEmbeddings(i,e,t):Ti(i,e,t)}async function Ti(i,e,t){let n=new Array(i.length).fill(null),s=await vi();for(let r=0;r<i.length;r+=e){let o=Math.min(r+e,i.length),c=i.slice(r,o);try{let a=await s(c,{pooling:"mean",normalize:!0}),[l,p]=a.dims;for(let u=0;u<l;u++){let d=u*p,m=d+p;n[r+u]=Array.from(a.data.slice(d,m))}}catch(a){S.error({err:a,batchStart:r,batchEnd:o},"Single-threaded batch embedding failed, falling back to sequential for this chunk");for(let l=0;l<c.length;l++)try{let p=c[l];if(!p||p.trim().length===0)continue;let u=await s(p,{pooling:"mean",normalize:!0});n[r+l]=Array.from(u.data)}catch{n[r+l]=null}}t&&t(o,i.length)}return S.debug({total:i.length,successful:n.filter(r=>r!==null).length},"Batch embedding complete"),n}function Ft(i,e){let t=0,n=0,s=0;for(let r=0;r<i.length;r++)t+=i[r]*e[r],n+=i[r]*i[r],s+=e[r]*e[r];return t/(Math.sqrt(n)*Math.sqrt(s))}var Dt,xi,Es,_s,fn,rt=K(()=>{"use strict";W();wi();Dt=null;xi=128,Es=!1;_s=null;fn=class{queue=[];processing=!1;results=new 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it().generateEmbeddings(r,e,(a,l)=>{n&&n(a,l)});s.forEach((a,l)=>{this.results.set(a.id,c[l])})}clear(){this.queue=[],this.results.clear()}}});var bn,Ri=K(()=>{"use strict";Le();W();bn=class i extends te{findByMission(e,t=50){return this.all(`
       SELECT * FROM intent_logs 
       WHERE mission_id = ? 
       ORDER BY created_at DESC 
@@ -373,10 +364,10 @@ ORDER BY dc.depth, dc.consumer_path;
       WHERE type IN ('decision', 'system', 'fix', 'heritage', 'adr')
       ORDER BY created_at DESC 
       LIMIT ?
-    `,e)}create(e){return this.insert(`
+    `,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)}delete(e){this.run("DELETE FROM intent_logs WHERE id = ?",e)}update(e,t){let n=Object.keys(t);if(n.length===0)return;let s=n.map(o=>`${o} = ?`).join(", "),r=Object.values(t);r.push(e),this.run(`UPDATE intent_logs SET ${s} WHERE id = ?`,...r)}findRepairableOrphans(){return this.all(`
+    `,e.mission_id,e.symbol_id,e.file_path,e.type,e.content,e.confidence,e.symbol_name,e.signature,e.commit_sha);return i.EMBEDDABLE_TYPES.has(e.type)&&this.generateAndStoreEmbedding(Number(t),e).catch(n=>{S.debug({err:n,intentLogId:t},"Failed to generate intent log embedding")}),t}static EMBEDDABLE_TYPES=new Set(["decision","discovery","fix","blocker","heritage","crystal"]);static buildEmbeddingText(e){let t=[`[${e.type}]`];return e.symbol_name&&t.push(`symbol: ${e.symbol_name}`),e.file_path&&t.push(`file: ${e.file_path.split("/").pop()}`),t.push(e.content),t.join(" ")}async generateAndStoreEmbedding(e,t){let{generateEmbedding:n}=await Promise.resolve().then(()=>(rt(),Ss)),s=i.buildEmbeddingText(t),r=await n(s);r&&this.run("UPDATE intent_logs SET embedding = ? WHERE id = ?",JSON.stringify(r),e)}findWithEmbeddings(){return this.all("SELECT * FROM intent_logs WHERE embedding IS NOT NULL AND type NOT IN ('system', 'lapsed')")}delete(e){this.run("DELETE FROM intent_logs WHERE id = ?",e)}update(e,t){let n=Object.keys(t);if(n.length===0)return;let s=n.map(o=>`${o} = ?`).join(", "),r=Object.values(t);r.push(e),this.run(`UPDATE intent_logs SET ${s} WHERE id = ?`,...r)}findRepairableOrphans(){return this.all(`
       SELECT id, file_path, symbol_name, signature 
       FROM intent_logs 
       WHERE symbol_id IS NULL AND symbol_name IS NOT NULL
@@ -401,31 +392,50 @@ ORDER BY dc.depth, dc.consumer_path;
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       INSERT INTO intent_logs (type, content, commit_sha, created_at, confidence, mission_id)
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-    `,e,t,n,s)}countByType(e){return this.get("SELECT COUNT(*) as count FROM intent_logs WHERE type = ?",e)?.count||0}}});var en,ti=Q(()=>{"use strict";Ee();en=class extends X{findByKey(e,t=20){return this.all(`
+    `,e,t,n,s)}countByType(e){return this.get("SELECT COUNT(*) as count FROM intent_logs WHERE type = ?",e)?.count||0}findRawByMission(e){return this.all(`SELECT * FROM intent_logs
+       WHERE mission_id = ? AND is_crystallized = 0
+         AND type NOT IN ('adr', 'system', 'crystal', 'lapsed')
+       ORDER BY created_at ASC`,e)}findCrystalByMission(e){return this.get(`SELECT * FROM intent_logs
+       WHERE mission_id = ? AND type = 'crystal'
+       ORDER BY created_at DESC LIMIT 1`,e)}crystallize(e,t){return this.transaction(()=>{let n=this.insert(`INSERT INTO intent_logs (mission_id, type, content, confidence, is_crystallized, symbol_id, file_path, symbol_name, signature, commit_sha)
+         VALUES (?, 'crystal', ?, 1.0, 0, NULL, NULL, NULL, NULL, NULL)`,e,t);return this.run(`UPDATE intent_logs
+         SET is_crystallized = 1, crystal_id = ?
+         WHERE mission_id = ? AND is_crystallized = 0 AND id != ?
+           AND type NOT IN ('adr', 'system', 'crystal', 'lapsed')`,n,e,n),n})}countByMissions(e){if(e.length===0)return{};let t=e.map(()=>"?").join(","),n=this.all(`SELECT mission_id, COUNT(*) as cnt
+       FROM intent_logs
+       WHERE mission_id IN (${t})
+         AND type NOT IN ('system', 'adr', 'lapsed')
+       GROUP BY mission_id`,...e),s={};for(let r of n)s[r.mission_id]=r.cnt;return s}findMissionsWithBlockers(e){if(e.length===0)return new Set;let t=e.map(()=>"?").join(","),n=this.all(`SELECT DISTINCT mission_id
+       FROM intent_logs
+       WHERE mission_id IN (${t})
+         AND type = 'blocker'`,...e);return new Set(n.map(s=>s.mission_id))}findByMissionPreferCrystal(e,t=50){let n=this.findCrystalByMission(e);if(n){let s=this.all(`SELECT * FROM intent_logs
+         WHERE mission_id = ? AND is_crystallized = 0 AND type NOT IN ('adr', 'system', 'crystal', 'lapsed')
+           AND created_at > ?
+         ORDER BY created_at DESC LIMIT ?`,e,n.created_at,t-1);return[n,...s]}return this.findByMission(e,t)}async backfillEmbeddings(e=64,t){let{generateEmbeddingsBatch:n}=await Promise.resolve().then(()=>(rt(),Ss)),s=[...i.EMBEDDABLE_TYPES].map(p=>`'${p}'`).join(","),r=this.all(`SELECT * FROM intent_logs WHERE embedding IS NULL AND type IN (${s})`);if(r.length===0)return 0;let o=r.map(p=>i.buildEmbeddingText(p)),c=await n(o,e,t),a=this.db.prepare("UPDATE intent_logs SET embedding = ? WHERE id = ?"),l=0;return this.transaction(()=>{for(let p=0;p<r.length;p++)c[p]&&(a.run(JSON.stringify(c[p]),r[p].id),l++)}),S.info({total:r.length,embedded:l},"Intent log embedding backfill complete"),l}}});var _n,ki=K(()=>{"use strict";Le();_n=class extends te{findByKey(e,t=20){return this.all(`
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+      `,`%${e}%`,`%${e}%`,t)}findByKind(e,t=50){let n="SELECT key, value, kind, file_path FROM configs",s=[];return e&&(n+=" WHERE kind = ?",s.push(e)),n+=" LIMIT ?",s.push(t),this.all(n,...s)}findEnvValue(e){return this.get("SELECT value FROM configs WHERE key LIKE ? OR key = ? LIMIT 1",`%:env:${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 En,Ii=K(()=>{"use strict";Le();En=class extends te{search(e,t=10){return this.all(`
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+       WHERE query LIKE ? ORDER BY created_at DESC LIMIT ?`,`${e}%`,t):this.findRecent(t)}pruneIfNeeded(){(this.get("SELECT COUNT(*) as count FROM search_history")?.count??0)<=Ci||this.run(`DELETE FROM search_history WHERE id NOT IN (
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-      )`,si)}}});var sn,ri=Q(()=>{"use strict";Ee();sn=class extends X{getSection(e){return this.get("SELECT section, data, updated_at FROM hologram_snapshot WHERE section = ?",e)}getAllSections(){return this.all("SELECT section, data, updated_at FROM hologram_snapshot ORDER BY section")}upsertSection(e,t){this.run(`
+      )`,Ci)}}});var wn,$i=K(()=>{"use strict";Le();wn=class extends te{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(`
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+${f.bold("\u{1F9E9} Symbols")}:     ${f.cyan(o.toString())} exports detected
+${f.bold("\u{1F552} Last Sync")}:   ${c?f.yellow(new Date(c).toLocaleString()):f.red("Never")}
+${f.bold("\u2699\uFE0F Config")}:      ${s?f.green("Custom Intelligence"):f.gray("Standard Sieve")}`,"blue"),a.length>0&&(console.log(""),console.log(`  ${f.bold("Symbol Distribution (Top 5)")}`),Rn(a.map(l=>({label:l.kind,value:l.c,color:"cyan"})),30)),console.log(""),console.log(`  ${f.dim("Pro-tip: Try")} ${f.bold(f.cyan("liquid-shadow dashboard"))} ${f.dim("for the full tactical view.")}`),console.log(""),Ee("Scouting complete.")})}finally{await J(e)}}z();qe();import ji from"path";var vs=class{startTime=Date.now();indexRuns=0;indexCacheHits=0;lastIndexDurationMs=null;lastIndexCompletedAt=null;lastRunPhases=[];queryCount=0;lastQueryLatencyMs=null;recentLatencySumMs=0;recentLatencyCount=0;recentLatencies=[];searchHistoryFailureCount=0;recordIndexStart(){this.indexRuns+=1}recordIndexCacheHit(){this.indexCacheHits+=1}recordIndexEnd(e){this.lastIndexDurationMs=e,this.lastIndexCompletedAt=Date.now()}recordIndexPhase(e,t){this.lastRunPhases.push({phase:e,durationMs:t})}clearIndexPhases(){this.lastRunPhases=[]}recordQueryStart(){let e=performance.now();return()=>{this.queryCount+=1;let t=performance.now()-e;if(this.lastQueryLatencyMs=t,this.recentLatencies.push(t),this.recentLatencies.length>100){let n=this.recentLatencies.shift();this.recentLatencySumMs=this.recentLatencySumMs-n+t}else this.recentLatencySumMs+=t,this.recentLatencyCount=this.recentLatencies.length}}recordSearchHistoryFailure(){this.searchHistoryFailureCount+=1}getSnapshot(){let e=this.recentLatencies.length,t=e>0?this.recentLatencies.reduce((n,s)=>n+s,0)/e:null;return{index:{runs:this.indexRuns,cacheHits:this.indexCacheHits,lastDurationMs:this.lastIndexDurationMs,lastCompletedAt:this.lastIndexCompletedAt,lastRunPhases:[...this.lastRunPhases]},query:{count:this.queryCount,lastLatencyMs:this.lastQueryLatencyMs,recentLatencySumMs:this.recentLatencySumMs,recentLatencyCount:e,avgLatencyMs:t,searchHistoryFailures:this.searchHistoryFailureCount},uptimeMs:Date.now()-this.startTime}}reset(){this.indexRuns=0,this.indexCacheHits=0,this.lastIndexDurationMs=null,this.lastIndexCompletedAt=null,this.lastRunPhases=[],this.queryCount=0,this.lastQueryLatencyMs=null,this.recentLatencySumMs=0,this.recentLatencyCount=0,this.recentLatencies=[],this.searchHistoryFailureCount=0}},Ye=new vs;function Oi(){Ye.recordIndexStart()}function Ts(){Ye.recordIndexCacheHit()}function Fi(i){Ye.recordIndexEnd(i)}function Wt(i,e){Ye.recordIndexPhase(i,e)}function Wi(){Ye.clearIndexPhases()}function In(){return Ye.recordQueryStart()}function yt(){Ye.recordSearchHistoryFailure()}function Cn(){return Ye.getSnapshot()}W();import ue from"fs";import ot from"path";var bt=S.child({module:"git-hooks"}),Ln={"post-merge":`#!/bin/sh
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@@ -459,22 +469,30 @@ REPO_PATH="$(git rev-parse --show-toplevel)"
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+`).some(s=>s?fr(wc(s)):!1):!1}catch{return!0}}z();W();import{execSync as _r}from"child_process";var dt=S.child({module:"nano-repair"}),Pe=class{intentLogs;exports;missions;repoPath;constructor(e){let{intentLogs:t,exports:n,missions:s}=C.getInstance(e);this.intentLogs=t,this.exports=n,this.missions=s,this.repoPath=e}detectAndRepairShifts(){let e=this.intentLogs.findRepairableOrphans();if(e.length===0)return{repaired:0,failed:0};dt.info({count:e.length},"Detected orphaned intent logs. Attempting recovery...");let t=0,n=0;for(let s of e){let r=this.exports.findByNameAndFile(s.symbol_name,s.file_path);if(r.length>0){let c=r.find(a=>a.signature===s.signature)||r[0];this.intentLogs.update(s.id,{symbol_id:c.id}),dt.info({logId:s.id,symbol:s.symbol_name},"Relinked symbol in same file"),t++;continue}let o=this.exports.findByNameGlobal(s.symbol_name);if(o.length>0){let c=o.filter(a=>a.file_path!==s.file_path);if(c.length>0){let a=c.find(l=>l.signature===s.signature)||c[0];this.intentLogs.update(s.id,{symbol_id:a.id,file_path:a.file_path}),dt.info({logId:s.id,symbol:s.symbol_name,oldPath:s.file_path,newPath:a.file_path},"Detected Nano-Repair Shift (file move)"),t++;continue}}n++}return t>0&&dt.info({repaired:t,failed:n},"Nano-Repair recovery complete"),{repaired:t,failed:n}}syncLifecycle(){let e="HEAD";try{e=_r("git rev-parse --abbrev-ref HEAD",{cwd:this.repoPath,encoding:"utf-8",stdio:["ignore","pipe","ignore"]}).trim()}catch{return{suspended:0,resumed:0,completed:0}}if(!e)return{suspended:0,resumed:0,completed:0};let t=this.missions.findActive(),n=0;for(let o of t)o.git_branch&&o.git_branch!==e&&(this.missions.updateStatus(o.id,"suspended"),dt.info({missionId:o.id,branch:o.git_branch,current:e},"Context Pivot: Suspended mission"),n++);this.missions.resumeByBranch(e);let s=[];try{s=_r(`git branch --merged "${e}"`,{cwd:this.repoPath,encoding:"utf-8",stdio:["ignore","pipe","ignore"]}).split(`
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config"),{meta:R,exports:[],imports:[],content:"",kind:"error"}}}));S.info({total:x,codeFiles:y.length,configFiles:E.length,useParserPool:v},"Phase 1: Parsing all files...");let U=Date.now(),H=(await Promise.all([...O,...I])).filter(Boolean),P=Date.now()-U;if(Wt("parse",P),S.info({count:H.length,time:`${(P/1e3).toFixed(1)}s`},"Phase 1 complete"),v&&wr().catch(()=>{}),o.pragma("synchronous = NORMAL"),o.pragma("cache_size = -64000"),n){let R=[];H.forEach((ae,ye)=>{"summary"in ae&&ae.summary&&R.push({fileIdx:ye,text:ae.summary})}),S.info("Phase 2+3: Generating embeddings + persisting in parallel..."),s?.({phase:"embed",current:0,total:H.length,message:"Generating embeddings..."});let A=Date.now(),D=(async()=>{if(R.length>0){S.info({count:R.length},"  \u2192 Generating file summary embeddings...");let ae=R.map(j=>j.text),ye=await yn(ae,256);return S.info({count:R.length},"  \u2713 File summaries complete"),ye}return[]})();s?.({phase:"persist",current:0,total:H.length,message:"Saving to database..."});let $=Date.now();r.files.batchSaveIndexResults(H,i,mt,lt);let L=Date.now()-$;Wt("persist",L),S.info({time:`${(L/1e3).toFixed(1)}s`},"Structural persist complete");let Y=await D,he=Date.now()-A;if(Wt("embed",he),S.info({time:`${(he/1e3).toFixed(1)}s`},"Embeddings complete"),Y.length>0){let ae=o.prepare("UPDATE files SET embedding = ? 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possible attack"),new Error("Invalid path: contains null bytes");let t;if(ne.isAbsolute(e)?t=ne.normalize(e):t=ne.join(this.repoPath,e),t=ne.normalize(t),!this.isWithinRoot(t))throw jn.warn({inputPath:e,resolved:t},"Path traversal attempt blocked"),new Error(`Access denied: path '${e}' is outside the repository root`);return t}resolveAndValidate(e){try{let t=this.resolve(e);return Os.existsSync(t)?t:(jn.debug({inputPath:e,resolved:t},"Path does not exist"),null)}catch(t){return jn.error({inputPath:e,error:t},"Error validating path"),null}}isWithinRoot(e){try{let t=ne.resolve(e),n=ne.resolve(this.repoPath),s=ne.relative(n,t);if(s.startsWith("..")||ne.isAbsolute(s))return!1;if(Os.existsSync(t)){let o=Os.realpathSync(t),c=ne.relative(n,o);if(c.startsWith("..")||ne.isAbsolute(c))return!1}return!0}catch{return!1}}getRelative(e){let t=ne.normalize(e);return ne.relative(this.repoPath,t)}resolveBatch(e){return e.map(t=>this.resolve(t))}static normalize(e){return ne.normalize(e)}static isPathWithinRoot(e,t){let n=ne.resolve(e),s=ne.resolve(t),r=ne.relative(n,s);return r===""||!r.startsWith("..")&&!ne.isAbsolute(r)}};function Rr(i){return new Jt(i)}async function Ir(i,e){let t=kr.resolve(i);await B(async()=>{if(se("\u{1F311} Liquid Shadow: Intelligence Deployment"),console.log(`  ${f.bold("Target")}:    ${f.cyan(t)}`),console.log(`  ${f.bold("Objective")}: ${e.output?f.magenta("Data Extraction"):f.green("Semantic Mapping")}`),console.log(""),!e.output){let s=be();s.start("Engaging intelligence engines...");let r="",o=c=>{if(c.phase!==r){r=c.phase;let a={scan:"\u{1F4E1} Scanning topography",parse:"\u{1F9E9} Parsing symbols",embed:"\u{1F9E0} Generating vectors",persist:"\u{1F4BE} Hardening index",complete:"\u{1F3C1} Mapping complete"}[c.phase]||c.phase;s.message(`${a}...`)}if(c.total>0&&c.current>0){let a=Math.round(c.current/c.total*100);s.message(`${r==="parse"?"Parsing":"Processing"}: ${c.current}/${c.total} (${a}%)`)}};try{await G(t,void 0,e.force,e.deep??!0,o),s.message("\u{1FA79} Running Nano-Repair healing...");let a=new Pe(t).detectAndRepairShifts();s.stop("Intelligence mapping successfully concluded."),console.log(""),console.log(`  ${f.bold("Next Steps:")}`),console.log(`  ${f.dim("view your repo stats")}  ->  ${f.bold(f.cyan("liquid-shadow dashboard"))}`),console.log(`  ${f.dim("start a chat search")}  ->  ${f.bold(f.cyan('liquid-shadow search-concept "your query"'))}`),console.log(""),Ee("Liquid Shadow is online.")}catch(c){throw s.stop(`Operation failed: ${c.message}`),c}finally{await J(t)}return}let n=be();n.start("Engaging intelligence engines...");try{let s=await qt(t,5,e.level,e.subPath),r=kr.resolve(e.output);if((process.env.LIQUID_SHADOW_SANDBOX==="1"||process.env.LIQUID_SHADOW_SANDBOX==="true")&&!Jt.isPathWithinRoot(t,r))throw new Error("Sandbox mode: output path must be inside the repository. 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+  ${f.bold("Performance Benchmark - Liquid Shadow Intelligence")}`),console.log(`  ${f.gray("Repository: ")} ${e}`),console.log(`  ${f.yellow("Starting fresh index (DB deleted)...")}
+`);let t=Cr.now();try{await G(e,10,!0);let n=Cr.now()-t,s=C.getInstance(e),r=s.files.getCount(),o=s.exports.getCount(),c=s.exports.getWithEmbeddingsCount();X("Benchmark Results",`${f.bold("Total Time")}:          ${n.toFixed(2)}ms (${(n/1e3).toFixed(2)}s)
+${f.bold("Files Processed")}:     ${f.cyan(r.toString())}
+${f.bold("Symbols Extracted")}:   ${f.cyan(o.toString())}
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-${E.bold("Files/sec")}:           ${E.green((r/(n/1e3)).toFixed(2))}
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if(e.callee.type==="MemberExpression"){let t=e.callee.property.value,n=r=>{if(!r)return"?";if(r.type==="Identifier")return r.value;if(r.type==="ThisExpression")return"this";if(r.type==="MemberExpression"){let o=n(r.object),c=r.property.value||"?";return`${o}.${c}`}return r.type==="TsNonNullExpression"||r.type==="TsAsExpression"||r.type==="ParenthesisExpression"?n(r.expression):"?"},s=n(e.callee.object);if(s!=="?"&&t){if(this.calls.add(`${s}.${t}`),s==="axios"||s==="http"||this.axiosInstances.has(s)){let r=this.axiosInstances.get(s)||"";this.extractApiCall(t,e.arguments,r)}if((s.toLowerCase().includes("pubsub")||s==="pubSubClient"||s.endsWith(".pubSubClient"))&&t!=="subscribe"){let r=t;if((t==="publish"||t==="publishMessage"||t==="publishTaskByNameAndPayload")&&e.arguments.length>0)for(let o of e.arguments){let c=o.expression;if(c.type==="ObjectExpression"){let a=c.properties.find(l=>l.key?.type==="Identifier"&&(l.key.value==="action"||l.key.value==="type")||l.key?.type==="StringLiteral"&&(l.key.value==="action"||l.key.value==="type"));if(a&&a.value?.type==="StringLiteral"){r=a.value.value;break}}if(c.type==="CallExpression"&&c.callee.type==="MemberExpression"&&c.callee.object.value==="JSON"&&c.callee.property.value==="stringify"&&c.arguments.length>0){let a=c.arguments[0].expression;if(a.type==="ObjectExpression"){let l=a.properties.find(p=>p.key?.type==="Identifier"&&(p.key.value==="action"||p.key.value==="type")||p.key?.type==="StringLiteral"&&(p.key.value==="action"||p.key.value==="type"));if(l&&l.value?.type==="StringLiteral"){r=l.value.value;break}}}}this.apiCalls.push({method:"PUBSUB",url:r})}}}return e.callee.type==="Identifier"&&e.callee.value==="fetch"&&this.extractApiCall("GET",e.arguments),super.visitCallExpression(e)}visitNewExpression(e){return e.callee.type==="Identifier"&&this.calls.add(e.callee.value),super.visitNewExpression(e)}visitVariableDeclarator(e){if(e.init&&e.init.type==="CallExpression"){let t=e.init.callee;if(t.type==="MemberExpression"&&t.property.value==="create"&&t.object.value==="axios"){let s=e.init.arguments[0]?.expression;if(s&&s.type==="ObjectExpression"){let r=s.properties.find(o=>o.key.value==="baseURL");if(r){let o="?";r.value.type==="StringLiteral"?o=r.value.value:r.value.type==="Identifier"&&(o=`\${${r.value.value}}`),e.id.type==="Identifier"&&this.axiosInstances.set(e.id.value,o)}}}}return super.visitVariableDeclarator(e)}extractApiCallFromConfig(e){if(e&&e.type==="ObjectExpression"){let t=e.properties.find(s=>s.key.type==="Identifier"&&s.key.value==="url"||s.key.type==="StringLiteral"&&s.key.value==="url"),n=e.properties.find(s=>s.key.type==="Identifier"&&s.key.value==="method"||s.key.type==="StringLiteral"&&s.key.value==="method");if(t&&t.value){let s=n?.value?.value||"GET",r=this.resolveUrlValue(t.value);r!=="?"&&this.apiCalls.push({method:s.toUpperCase(),url:r})}}}resolveUrlValue(e){return e.type==="StringLiteral"?e.value:e.type==="TemplateLiteral"?e.quasis.map(t=>t.cooked).join("*"):"?"}visitTsType(e){return e}extractApiCall(e,t,n=""){if(t.length>0){let s=t[0].expression,r=this.resolveUrlValue(s);if(r!=="?"){if(n&&n!=="?"){let o=n.endsWith("/")||r.startsWith("/")?"":"/";r=`${n}${o}${r}`}this.apiCalls.push({method:e.toUpperCase(),url:r})}}}},pt=class{calls=new Set;apiCalls=[];imports=new Map;visit(e,t){if(t===".php"){let n=/(?:([a-zA-Z0-9_$->:\(\)]*)?(?:->|::))?([a-zA-Z0-9_]+)\s*\(([\s\S]*?)\)/g,s;for(;(s=n.exec(e))!==null;){let r=s[1]||"",o=s[2],c=s[3];if(this.calls.add(o),r&&!["$this","self","parent"].includes(r)&&this.calls.add(`${r}${r.includes("::")?"::":"->"}${o}`),["save","delete","update","create","first","all","where","get","find"].includes(o)&&r&&!["Log","Route","Cache","Config","Http"].includes(r)&&this.apiCalls.push({method:"DB",url:`${r}->${o}()`}),o==="publish"&&r&&(r.includes("topic")||r.includes("pubSub"))&&this.apiCalls.push({method:"PUBSUB",url:"publish"}),["get","post","put","delete","patch","request"].includes(o)&&(r==="Http"||r==="client"||r.endsWith("request")||r.includes("Client")||!r)){let p=c.match(/(?:url\s*:\s*)?['"]([^'"]+)['"]/),d=p?p[1]:c.split(",")[0].trim()||"unknown";this.apiCalls.push({method:o.toUpperCase(),url:d})}}}else if(t===".py"){let n=/(?:([a-zA-Z0-9_\.]+)\.)?([a-zA-Z0-9_]+)\s*\(([\s\S]*?)\)/g,s;for(;(s=n.exec(e))!==null;){let r=s[1]||"",o=s[2],c=s[3];if(this.calls.add(o),r&&r!=="self"&&r!=="cls"&&this.calls.add(`${r}.${o}`),["save","delete","update","create","first","all","filter","get"].includes(o)&&r&&!["logger","os","sys"].includes(r)&&this.apiCalls.push({method:"DB",url:`${r}.${o}()`}),o==="publish"&&r&&(r.includes("publisher")||r.includes("client"))&&this.apiCalls.push({method:"PUBSUB",url:"publish"}),["get","post","put","delete","patch","request"].includes(o)&&(r==="requests"||r==="httpx"||r==="client"||r==="http"||!r)){let p=c.match(/(?:url\s*:\s*)?['"]([^'"]+)['"]/),d=p?p[1]:c.split(",")[0].trim()||"unknown";this.apiCalls.push({method:o.toUpperCase(),url:d})}}}else if([".ts",".tsx",".js",".jsx"].includes(t)){let n=/import\s+[\s\S]*?from\s+['"](.*?)['"];?/g,s;for(;(s=n.exec(e))!==null;)this.imports.set("*",s[1]);let r=/(?:([a-zA-Z0-9_$]+)\.)?([a-zA-Z0-9_$]+)\s*\(/g,o;for(;(o=r.exec(e))!==null;){let c=o[1],a=o[2];c?(this.calls.add(`${c}.${a}`),(c.toLowerCase().includes("pubsub")||c==="pubSubClient")&&a!=="subscribe"&&this.apiCalls.push({method:"PUBSUB",url:a})):this.calls.add(a)}}else{let n=/\.([a-zA-Z0-9_]+)\s*\(/g,s;for(;(s=n.exec(e))!==null;)this.calls.add(s[1])}if(t===".php"){let n=/use\s+([a-zA-Z0-9_\\]+)(?:\s+as\s+([a-zA-Z0-9_]+))?;/g,s;for(;(s=n.exec(e))!==null;){let r=s[1],o=r.split("\\"),c=s[2]||o[o.length-1];this.imports.set(c,r)}}else if(t===".py"){let n=/from\s+([a-zA-Z0-9_\.]+)\s+import\s+([a-zA-Z0-9_,\s]+)/g,s;for(;(s=n.exec(e))!==null;){let c=s[1];s[2].split(",").map(l=>l.trim()).forEach(l=>{this.imports.set(l,c)})}let r=/^import\s+([a-zA-Z0-9_\.]+)/gm,o;for(;(o=r.exec(e))!==null;){let c=o[1],a=c.split("."),l=a[a.length-1];this.imports.set(l,c)}}}};var cc=new Set(["api","v1","v2","v3","http","https","localhost","admin","internal","public","private","app","src","get","post","put","delete","patch","user","users","id","search","list","create","update","data"]);function 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f=50,h=(m.signature||m.name||"").toLowerCase();(m.name||"").toLowerCase().includes(s.replace(/\*/g,"").toLowerCase())&&(f+=200);for(let y of a)h.includes(y.toLowerCase())&&(f+=20);r.push({file_path:m.file_path,start_line:m.start_line,signature:`[Boundary] ${m.signature||m.name}`,capabilities:m.capabilities||void 0,score:f})}}if(r.length<3){let p=a.map(d=>d.replace(/[^a-zA-Z0-9_]/g,"")).filter(d=>d.length>0).join(" AND ");if(p.length>0){let d=i.content.search(p);for(let u of d){let m=0,f=u.file_path.toLowerCase(),h=u.snippet.toLowerCase();(f.includes("route")||f.includes("controller"))&&(m+=10),(f.includes("src/api")||f.includes("services/api"))&&(m+=5),(h.includes("addroute")||h.includes("@get"))&&(m+=15),(h.includes("axios.")||h.includes("fetch("))&&(m-=10),(f.includes(".spec.")||f.includes(".test."))&&(m-=20),m>0&&r.push({file_path:u.file_path,start_line:0,signature:`[FTS Match] ${u.snippet.replace(/\n/g," ")}`,score:m})}}}let l=new Map;return r.sort((p,d)=>d.score-p.score).forEach(p=>{l.has(p.file_path)||l.set(p.file_path,p)}),Array.from(l.values()).slice(0,3)}var lc=4,Pt=50,pc=2,uc=new Set(["push","pop","shift","unshift","slice","splice","map","filter","reduce","reduceRight","forEach","find","findIndex","includes","indexOf","lastIndexOf","every","some","flat","flatMap","fill","copyWithin","entries","keys","values","join","concat","sort","reverse","at","with","toSorted","toReversed","toSpliced","toString","valueOf","hasOwnProperty","isPrototypeOf","propertyIsEnumerable","toLocaleString","charAt","charCodeAt","codePointAt","split","substring","substr","trim","trimStart","trimEnd","padStart","padEnd","repeat","replace","replaceAll","match","matchAll","search","toLowerCase","toUpperCase","localeCompare","normalize","startsWith","endsWith","then","catch","finally","get","set","has","delete","clear","size","length","call","apply","bind"]);async function 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-${a}`:a,g=await pr.parse(y,b);u.visitModule(g)}catch{if(c)try{let g=`${d}
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+${a}`:a,y=await Nr.parse(b,_);d.visitModule(y)}catch{if(c)try{let y=`${u}
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-`).filter(o=>o.trim()!=="");if(r.length===0)return;kn.info({files:r.length,range:t},"Initiating Shadow Trace analysis...");for(let o of r){let c=Sc.join(this.repoPath,o),l=Br(`git diff -U0 ${t} -- ${o}`,{cwd:this.repoPath,encoding:"utf-8"}).matchAll(/@@ -(\d+)(?:,\d+)? \+(\d+)(?:,\d+)? @@/g);for(let p of l){let d=parseInt(p[2],10),u=this.exports.findAtLine(c,d);u&&(this.intentLogs.create({mission_id:0,file_path:c,symbol_id:u.id,type:"discovery",content:`Shadow Trace: Modified externally in ${t}`,confidence:.8,symbol_name:u.name,signature:u.signature,commit_sha:null}),kn.debug({symbol:u.name},"Logged ghost change"),n.push({from:"external",to:`${o}:${u.name}`,pattern:"git-delta",confidence:.8}))}}n.length>0&&this.hologramService.updateGhostBridges(n),kn.info("Shadow Trace complete.")}catch(s){kn.warn({err:s.message},"Shadow Trace failed: git diff error.")}}};U();import{execSync as ht}from"child_process";var Ln=class{constructor(e,t="refs/notes/shadow"){this.repoPath=e;this.ref=t}addNote(e,t){try{ht(`git notes --ref ${this.ref} add -f -m '${t.replace(/'/g,"'\\''")}' ${e}`,{cwd:this.repoPath,stdio:["ignore","pipe","ignore"],encoding:"utf8"})}catch(n){throw new Error(`Failed to add git note to ${e}: ${n.message}`)}}getNote(e){try{return ht(`git notes --ref ${this.ref} show ${e}`,{cwd:this.repoPath,stdio:["ignore","pipe","ignore"],encoding:"utf8"}).trim()}catch{return null}}listNotes(){let e=new Map;try{let t=ht(`git notes --ref ${this.ref} list`,{cwd:this.repoPath,stdio:["ignore","pipe","ignore"],encoding:"utf8"}).trim();if(!t)return e;let n=t.split(`
-`);for(let s of n){let[r,o]=s.split(" ");if(o){let c=this.getNote(o);c&&e.set(o,c)}}}catch{}return e}removeNote(e){try{ht(`git notes --ref ${this.ref} remove ${e}`,{cwd:this.repoPath,stdio:["ignore","pipe","ignore"],encoding:"utf8"})}catch{}}push(e="origin"){try{ht(`git push ${e} ${this.ref}`,{cwd:this.repoPath,stdio:["ignore","pipe","ignore"],encoding:"utf8"})}catch(t){throw new Error(`Failed to push git notes to ${e}: ${t.message}`)}}fetch(e="origin"){try{ht(`git fetch ${e} ${this.ref}:${this.ref}`,{cwd:this.repoPath,stdio:["ignore","pipe","ignore"],encoding:"utf8"})}catch{}}};P();var ft=_.child({module:"persistence-service"}),ve=class{gitNotes;repoPath;constructor(e){this.repoPath=e,this.gitNotes=new Ln(e)}async syncMissionToGitNotes(e){let{missions:t,intentLogs:n}=C.getInstance(this.repoPath),s=t.findById(e);if(!s)throw new Error(`Mission ${e} not found`);if(!s.commit_sha){ft.warn({missionId:e},"Cannot sync mission without commit_sha");return}ft.info({missionId:e,commitSha:s.commit_sha},"Syncing mission to Git Notes");let r=t.getArtifacts(e),o=n.findByMission(e,1e3),c=o.find(p=>p.type==="adr"),a=o.filter(p=>p.type==="decision").map(p=>({content:p.content,symbol_name:p.symbol_name,created_at:p.created_at})),l={version:"1.0",mission:{name:s.name,goal:s.goal,status:s.status,strategy_graph:s.strategy_graph,git_branch:s.git_branch,commit_sha:s.commit_sha,parent_id:s.parent_id,verification_context:s.verification_context,outcome_contract:s.outcome_contract,created_at:s.created_at,updated_at:s.updated_at},artifacts:r,adr:c?c.content:null,decisions:a};this.gitNotes.addNote(s.commit_sha,JSON.stringify(l,null,2))}async syncAllToGitNotes(){let{missions:e}=C.getInstance(this.repoPath),t=e.findActive(),n=e.findRecentCompleted(10),s=[...t,...n];for(let r of s)try{await this.syncMissionToGitNotes(r.id)}catch(o){ft.error({missionId:r.id,error:o},"Failed to sync mission")}}async recoverFromGitNotes(){let e=this.gitNotes.listNotes(),{missions:t,intentLogs:n}=C.getInstance(this.repoPath),s=0,r=0;for(let[o,c]of e.entries())try{let a=JSON.parse(c);if(a.version!=="1.0")continue;if(t.findByCommitShas([o]).some(u=>u.name===a.mission.name)){ft.debug({commitSha:o,missionName:a.mission.name},"Mission already exists, skipping recovery");continue}let d=t.create({name:a.mission.name,goal:a.mission.goal,status:a.mission.status,strategy_graph:a.mission.strategy_graph,git_branch:a.mission.git_branch,commit_sha:o,parent_id:a.mission.parent_id,verification_context:a.mission.verification_context,outcome_contract:a.mission.outcome_contract});if(s++,a.adr&&(n.create({mission_id:Number(d),symbol_id:null,file_path:null,type:"adr",content:a.adr,confidence:1,symbol_name:null,signature:null,commit_sha:o}),r++),a.decisions&&a.decisions.length>0)for(let u of a.decisions)n.create({mission_id:Number(d),symbol_id:null,file_path:null,type:"decision",content:u.content,confidence:1,symbol_name:u.symbol_name,signature:null,commit_sha:o}),r++;ft.info({commitSha:o,missionName:a.mission.name,logsRecovered:r},"Re-hydrated mission from Git Notes")}catch(a){ft.error({commitSha:o,error:a},"Failed to parse Git Note for recovery")}return{missionsRecovered:s,logsRecovered:r}}};U();Ot();async function zr(i){let{repoPath:e}=i;try{await z(e),new mt(e).analyzeGhostChanges();let n=new Te(e),s=n.detectAndRepairShifts(),r=n.syncLifecycle(),c=await new ve(e).recoverFromGitNotes(),{HologramService:a}=await Promise.resolve().then(()=>(dt(),Ur)),l=new a(e),p=je(C.getInstance(e),e);l.updateTopography(p);let d=l.computeGravityZones();l.updateGravityZones(d);let u="Shadow Sync complete. Code changes indexed and intent logs updated.";return u+=`
-\u269B\uFE0F Hologram: Refreshed architectural map (${d.length} hotspots).`,s.repaired>0&&(u+=`
-\u2728 Nano-Repair: Fixed ${s.repaired} links.`),c.missionsRecovered>0&&(u+=`
-\u{1F9EC} Re-hydration: Recovered ${c.missionsRecovered} missions.`),{content:[{type:"text",text:u}]}}catch(t){return{content:[{type:"text",text:`Error: ${t.message}`}],isError:!0}}}async function Gr(i,e){let t=_c.resolve(i);await B(async()=>{le("Shadow Sync");let n=de();n.start("Synchronizing intelligence lifecycle...");try{let s=await zr({repoPath:t});n.stop("Sync complete."),s.isError?console.error(E.red(s.content[0].text)):(console.log(""),console.log(s.content[0].text),console.log(""))}catch(s){throw n.stop(`Sync failed: ${s.message}`),s}finally{await q(t)}})}Ot();U();P();dt();import Jr from"path";U();Ot();dt();import Le from"path";async function qr(i){let{repoPath:e}=i;await z(e);let t=C.getInstance(e),n=je(t,e),r=new ue(e).getSnapshot(),o=[],c=[],a=Object.values(n.layers.Entry.topFiles).map(u=>u.path),l=new Set(Object.values(n.layers.Data.topFiles).map(u=>u.path));for(let u of a){let m=Le.isAbsolute(u)?u:Le.join(e,u),f=t.imports.findByFile(m);for(let h of f)h.resolved_path&&l.has(Le.relative(e,h.resolved_path))&&o.push(`\u2694\uFE0F LAYER BYPASS: \`${Le.relative(e,u)}\` directly imports Data layer \`${Le.relative(e,h.resolved_path)}\`. Should go through Logic.`)}let p=r.gravity?.hotspots||[];for(let u of p){let m=Dt(u.filePath,t);(m.layer==="Utility"||m.layer==="Unknown")&&u.gravity>50&&c.push(`\u{1F6A8} GRAVITY ANOMALY: \`${Le.relative(e,u.filePath)}\` has high gravity (${u.gravity.toFixed(0)}) but is classified as ${m.layer}. Consider promoting to Core Logic.`)}for(let u of a){let m=Le.isAbsolute(u)?u:Le.join(e,u),f=t.exports.findByFile(m);f.length>10&&c.push(`\u{1F388} ENTRY BLOAT: \`${Le.relative(e,u)}\` exports ${f.length} symbols. Entry handlers should be thin interfaces.`)}let d=`# \u{1F575}\uFE0F Architectural Scout Report
-
-`;return o.length===0&&c.length===0?d+=`\u2705 No significant architectural drift detected. The structure remains "Legit".
-`:(o.length>0&&(d+=`## \u274C Structural Violations
-`,o.forEach(u=>d+=`- ${u}
-`),d+=`
-`),c.length>0&&(d+=`## \u26A0\uFE0F Architectural Warnings
-`,c.forEach(u=>d+=`- ${u}
-`),d+=`
-`)),{content:[{type:"text",text:d}]}}async function Yr(i,e,t){let n=e?Jr.resolve(process.cwd(),e):process.cwd();if(i==="init"){_.info('Running full initialization (same as "index --force")...'),await z(n,void 0,!0,!0);return}if(i==="tree"){_.info('For tree view, please use the "tree" command.');return}if(i==="topography"){await z(n);let s=C.getInstance(n),r=je(s,n);console.log(`
-\u{1F3D7}\uFE0F  Architecture Summary for ${Jr.basename(n)}
+}`,E=await Nr.parse(y,_);d.visitModule(E)}catch{let E=new vt,w=l;E.visit(a,w),d.calls=E.calls,d.apiCalls=E.apiCalls,d.imports=E.imports}else{let y=new vt;y.visit(a,l),d.calls=y.calls,d.apiCalls=y.apiCalls,d.imports=y.imports}}}else d=new vt,d.visit(a,l);S.info({file:ve.basename(i),calls:d.calls.size,apiCalls:d.apiCalls.length,depth:r},"Analyzed file");let m=d.apiCalls.slice(0,10);for(let _ of m){if(o.count>=Vt)break;if(o.count++,_.method==="PUBSUB"){let w={type:"event_trigger",name:`PubSub Event: ${_.url}`,details:"Detected via PubSub client usage",children:[]};e.children.push(w);let x=n.exports.findByNameGlobal(_.url).concat(n.exports.findByMethodName(_.url));if(_.url.length>10){let k=_.url.replace(/To[A-Z][a-zA-Z]+$/,"");if(k!==_.url){let N=n.exports.findByNameGlobal(k).concat(n.exports.findByMethodName(k));x.push(...N)}}let v=new Set;for(let k of x){if(v.has(k.file_path)||k.file_path===i)continue;if(v.add(k.file_path),o.count>=Vt)break;o.count++;let N={type:"subscriber",name:`${k.name} (${ve.basename(k.file_path)})`,path:ve.relative(t,k.file_path),line:k.start_line,details:"Potential Subscriber / Handler",children:[]};w.children.push(N),Yt.existsSync(k.file_path)&&!s.has(k.file_path)&&(s.add(k.file_path),await Tt(k.file_path,N,t,n,s,r+1,o))}continue}let b={type:"api_call",name:`${_.method} ${_.url}`,details:"Detected via string literal analysis",children:[]};e.children.push(b);let E=$r(n,_.url).slice(0,qc);for(let w of E){if(o.count>=Vt)break;o.count++;let x={type:"route",name:w.signature||"Route Handler",path:w.file_path,line:w.start_line,children:[]};if(b.children.push(x),Yt.existsSync(w.file_path)&&!s.has(w.file_path)&&(s.add(w.file_path),await Tt(w.file_path,x,t,n,s,r+1,o)),w.capabilities)try{let v=JSON.parse(w.capabilities);if(v.handler){let[k,N]=v.handler.split("@");if(k){let T=k.split("\\").pop();if(T){let I=n.exports.findClassByName(T);if(I){let U=n.exports.findByNameAndFile(N||"",I.file_path),H,P=I.start_line;U.length>0&&(H={start:U[0].start_line,end:U[0].end_line},P=U[0].start_line);let R={type:"component",name:`${T}${N?" :: "+N:""}`,path:ve.relative(t,I.file_path),line:P,details:"Controller Logic (Macro IR)",children:[]};x.children.push(R),s.has(I.file_path+(N?`:${N}`:""))||(s.add(I.file_path+(N?`:${N}`:"")),await Tt(I.file_path,R,t,n,s,r+1,o,H))}}}}}catch{}}}let h=d.calls,g=Array.from(h).sort();for(let _ of g)if(d.imports.has(_)){let b=d.imports.get(_);if(!b.startsWith(".")){if(["react","react-dom"].includes(b))continue;e.children.push({type:"function",name:_,details:`External: ${b}`,children:[]});continue}let y=lt(b,i,t);if(y&&Yt.existsSync(y))if(s.has(y))e.children.push({type:"function",name:_,details:"Circular / Already Visited",path:ve.relative(t,y),children:[]});else{s.add(y);let E={type:"file",name:_,details:`Imported from ${ve.basename(y)}`,path:ve.relative(t,y),children:[]};e.children.push(E),await Tt(y,E,t,n,s,r+1,o)}}else if(!["log","info","error","warn","print"].includes(_)){let b=n.exports.findByNameGlobal(_);if(b.length===0){let y=_.split(/(?:\.|->|::)+/);if(y.length>1){let E=y[y.length-1];Jc.has(E)||(b=n.exports.findByMethodName(E))}}if(b.length>0){let y=b.find(w=>w.file_path===i),E=y||(b.length===1?b[0]:null);if(E){let w=`${E.file_path}:${E.name}`;if(!s.has(w)){s.add(w);let x={type:"component",name:_,details:`Resolved via global index${y?" (local)":""}`,path:ve.relative(t,E.file_path),line:E.start_line,children:[]};e.children.push(x),await Tt(E.file_path,x,t,n,s,r+1,o,{start:E.start_line,end:E.end_line})}}}}}catch(a){S.error({filePath:i,error:a.message},"Trace analysis failed"),e.children.push({type:"function",name:"Error",details:a.message,children:[]})}}}async function Pr(i,e){let t=Gn.resolve(e.dir),n=Gn.isAbsolute(i)?i:Gn.resolve(t,i);await B(async()=>{se("Execution Trace");let s=be();s.start(`Tracing ${f.cyan(e.symbolName||Gn.basename(n))}...`);try{let r=await Ar({repoPath:t,filePath:n,symbolName:e.symbolName});s.stop("Trace complete."),r.isError?console.error(f.red(r.content[0].text)):X("Flow Results",r.content[0].text,"magenta")}catch(r){throw s.stop(`Trace failed: ${r.message}`),r}finally{await J(t)}})}import sl from"path";z();Rt();W();import{execSync as uo}from"child_process";import nl from"path";var qn=S.child({module:"shadow-trace"}),kt=class{intentLogs;exports;repoPath;hologramService;constructor(e){let{intentLogs:t,exports:n}=C.getInstance(e);this.intentLogs=t,this.exports=n,this.repoPath=e,this.hologramService=new ge(e)}analyzeGhostChanges(e){let t=e?`${e}..HEAD`:"HEAD~1..HEAD",n=[];try{let r=uo(`git diff --name-only ${t}`,{cwd:this.repoPath,encoding:"utf-8"}).split(`
+`).filter(o=>o.trim()!=="");if(r.length===0)return;qn.info({files:r.length,range:t},"Initiating Shadow Trace analysis...");for(let o of r){let c=nl.join(this.repoPath,o),l=uo(`git diff -U0 ${t} -- ${o}`,{cwd:this.repoPath,encoding:"utf-8"}).matchAll(/@@ -(\d+)(?:,\d+)? \+(\d+)(?:,\d+)? @@/g);for(let p of l){let u=parseInt(p[2],10),d=this.exports.findAtLine(c,u);d&&(this.intentLogs.create({mission_id:0,file_path:c,symbol_id:d.id,type:"discovery",content:`Shadow Trace: Modified externally in ${t}`,confidence:.8,symbol_name:d.name,signature:d.signature,commit_sha:null}),qn.debug({symbol:d.name},"Logged ghost change"),n.push({from:"external",to:`${o}:${d.name}`,pattern:"git-delta",confidence:.8}))}}n.length>0&&this.hologramService.updateGhostBridges(n),qn.info("Shadow Trace complete.")}catch(s){qn.warn({err:s.message},"Shadow Trace failed: git diff error.")}}};z();import{execSync as It}from"child_process";var Jn=class{constructor(e,t="refs/notes/shadow"){this.repoPath=e;this.ref=t}addNote(e,t){try{It(`git notes --ref ${this.ref} add -f -m '${t.replace(/'/g,"'\\''")}' ${e}`,{cwd:this.repoPath,stdio:["ignore","pipe","ignore"],encoding:"utf8"})}catch(n){throw new Error(`Failed to add git note to ${e}: ${n.message}`)}}getNote(e){try{return It(`git notes --ref ${this.ref} show ${e}`,{cwd:this.repoPath,stdio:["ignore","pipe","ignore"],encoding:"utf8"}).trim()}catch{return null}}listNotes(){let e=new Map;try{let t=It(`git notes --ref ${this.ref} list`,{cwd:this.repoPath,stdio:["ignore","pipe","ignore"],encoding:"utf8"}).trim();if(!t)return e;let n=t.split(`
+`);for(let s of n){let[r,o]=s.split(" ");if(o){let c=this.getNote(o);c&&e.set(o,c)}}}catch{}return e}removeNote(e){try{It(`git notes --ref ${this.ref} remove ${e}`,{cwd:this.repoPath,stdio:["ignore","pipe","ignore"],encoding:"utf8"})}catch{}}push(e="origin"){try{It(`git push ${e} ${this.ref}`,{cwd:this.repoPath,stdio:["ignore","pipe","ignore"],encoding:"utf8"})}catch(t){throw new Error(`Failed to push git notes to ${e}: ${t.message}`)}}fetch(e="origin"){try{It(`git fetch ${e} ${this.ref}:${this.ref}`,{cwd:this.repoPath,stdio:["ignore","pipe","ignore"],encoding:"utf8"})}catch{}}};W();var Ct=S.child({module:"persistence-service"}),Re=class{gitNotes;repoPath;constructor(e){this.repoPath=e,this.gitNotes=new Jn(e)}async syncMissionToGitNotes(e){let{missions:t,intentLogs:n}=C.getInstance(this.repoPath),s=t.findById(e);if(!s)throw new Error(`Mission ${e} not found`);if(!s.commit_sha){Ct.warn({missionId:e},"Cannot sync mission without commit_sha");return}Ct.info({missionId:e,commitSha:s.commit_sha},"Syncing mission to Git Notes");let r=t.getArtifacts(e),o=n.findByMission(e,1e3),c=o.find(p=>p.type==="adr"),a=o.filter(p=>p.type==="decision").map(p=>({content:p.content,symbol_name:p.symbol_name,created_at:p.created_at})),l={version:"1.0",mission:{name:s.name,goal:s.goal,status:s.status,strategy_graph:s.strategy_graph,git_branch:s.git_branch,commit_sha:s.commit_sha,parent_id:s.parent_id,verification_context:s.verification_context,outcome_contract:s.outcome_contract,created_at:s.created_at,updated_at:s.updated_at},artifacts:r,adr:c?c.content:null,decisions:a};this.gitNotes.addNote(s.commit_sha,JSON.stringify(l,null,2))}async syncAllToGitNotes(){let{missions:e}=C.getInstance(this.repoPath),t=e.findActive(),n=e.findRecentCompleted(10),s=[...t,...n];for(let r of s)try{await this.syncMissionToGitNotes(r.id)}catch(o){Ct.error({missionId:r.id,error:o},"Failed to sync mission")}}async recoverFromGitNotes(){let e=this.gitNotes.listNotes(),{missions:t,intentLogs:n}=C.getInstance(this.repoPath),s=0,r=0;for(let[o,c]of e.entries())try{let a=JSON.parse(c);if(a.version!=="1.0")continue;if(t.findByCommitShas([o]).some(d=>d.name===a.mission.name)){Ct.debug({commitSha:o,missionName:a.mission.name},"Mission already exists, skipping recovery");continue}let u=t.create({name:a.mission.name,goal:a.mission.goal,status:a.mission.status,strategy_graph:a.mission.strategy_graph,git_branch:a.mission.git_branch,commit_sha:o,parent_id:a.mission.parent_id,verification_context:a.mission.verification_context,outcome_contract:a.mission.outcome_contract});if(s++,a.adr&&(n.create({mission_id:Number(u),symbol_id:null,file_path:null,type:"adr",content:a.adr,confidence:1,symbol_name:null,signature:null,commit_sha:o}),r++),a.decisions&&a.decisions.length>0)for(let d of a.decisions)n.create({mission_id:Number(u),symbol_id:null,file_path:null,type:"decision",content:d.content,confidence:1,symbol_name:d.symbol_name,signature:null,commit_sha:o}),r++;Ct.info({commitSha:o,missionName:a.mission.name,logsRecovered:r},"Re-hydrated mission from Git Notes")}catch(a){Ct.error({commitSha:o,error:a},"Failed to parse Git Note for recovery")}return{missionsRecovered:s,logsRecovered:r}}};z();Kt();async function mo(i){let{repoPath:e}=i;try{await G(e),new kt(e).analyzeGhostChanges();let n=new Pe(e),s=n.detectAndRepairShifts(),r=n.syncLifecycle(),c=await new Re(e).recoverFromGitNotes(),{HologramService:a}=await Promise.resolve().then(()=>(Rt(),po)),l=new a(e),p=Ze(C.getInstance(e),e);l.updateTopography(p);let u=l.computeGravityZones();l.updateGravityZones(u);let d="Shadow Sync complete. Code changes indexed and intent logs updated.";return d+=`
+\u269B\uFE0F Hologram: Refreshed architectural map (${u.length} hotspots).`,s.repaired>0&&(d+=`
+\u2728 Nano-Repair: Fixed ${s.repaired} links.`),c.missionsRecovered>0&&(d+=`
+\u{1F9EC} Re-hydration: Recovered ${c.missionsRecovered} missions.`),{content:[{type:"text",text:d}]}}catch(t){return{content:[{type:"text",text:`Error: ${t.message}`}],isError:!0}}}async function ho(i,e){let t=sl.resolve(i);await B(async()=>{se("Shadow Sync");let n=be();n.start("Synchronizing intelligence lifecycle...");try{let s=await mo({repoPath:t});n.stop("Sync complete."),s.isError?console.error(f.red(s.content[0].text)):(console.log(""),console.log(s.content[0].text),console.log(""))}catch(s){throw n.stop(`Sync failed: ${s.message}`),s}finally{await J(t)}})}Kt();z();W();Rt();import go from"path";z();Kt();Rt();import Ue from"path";async function fo(i){let{repoPath:e}=i;await G(e);let t=C.getInstance(e),n=Ze(t,e),r=new ge(e).getSnapshot(),o=[],c=[],a=Object.values(n.layers.Entry.topFiles).map(d=>d.path),l=new Set(Object.values(n.layers.Data.topFiles).map(d=>d.path));for(let d of a){let m=Ue.isAbsolute(d)?d:Ue.join(e,d),h=t.imports.findByFile(m);for(let g of h)g.resolved_path&&l.has(Ue.relative(e,g.resolved_path))&&o.push(`\u2694\uFE0F LAYER BYPASS: \`${Ue.relative(e,d)}\` directly imports Data layer \`${Ue.relative(e,g.resolved_path)}\`. Should go through Logic.`)}let p=r.gravity?.hotspots||[];for(let d of p){let m=Qt(d.filePath,t);(m.layer==="Utility"||m.layer==="Unknown")&&d.gravity>50&&c.push(`\u{1F6A8} GRAVITY ANOMALY: \`${Ue.relative(e,d.filePath)}\` has high gravity (${d.gravity.toFixed(0)}) but is classified as ${m.layer}. Consider promoting to Core Logic.`)}for(let d of a){let m=Ue.isAbsolute(d)?d:Ue.join(e,d),h=t.exports.findByFile(m);h.length>10&&c.push(`\u{1F388} ENTRY BLOAT: \`${Ue.relative(e,d)}\` exports ${h.length} symbols. Entry handlers should be thin interfaces.`)}let u=`# \u{1F575}\uFE0F Architectural Scout Report
+
+`;return o.length===0&&c.length===0?u+=`\u2705 No significant architectural drift detected. The structure remains "Legit".
+`:(o.length>0&&(u+=`## \u274C Structural Violations
+`,o.forEach(d=>u+=`- ${d}
+`),u+=`
+`),c.length>0&&(u+=`## \u26A0\uFE0F Architectural Warnings
+`,c.forEach(d=>u+=`- ${d}
+`),u+=`
+`)),{content:[{type:"text",text:u}]}}async function yo(i,e,t){let n=e?go.resolve(process.cwd(),e):process.cwd();if(i==="init"){S.info('Running full initialization (same as "index --force")...'),await G(n,void 0,!0,!0);return}if(i==="tree"){S.info('For tree view, please use the "tree" command.');return}if(i==="topography"){await G(n);let s=C.getInstance(n),r=Ze(s,n);console.log(`
+\u{1F3D7}\uFE0F  Architecture Summary for ${go.basename(n)}
 `),console.log(`Detected Pattern: **${r.pattern}** (Confidence: ${r.patternConfidence.toFixed(0)}%)`),r.insights.length>0&&(console.log(`
 Insights:`),r.insights.forEach(l=>console.log(`- ${l}`))),console.log(`
-Layer Distribution:`);let o=["Entry","Logic","Data","Utility","Infrastructure","Test","Types","Unknown"],c=Object.values(r.layers).reduce((l,p)=>l+p.count,0),a=l=>{switch(l){case"Entry":return"\u{1F6AA}";case"Logic":return"\u2699\uFE0F";case"Data":return"\u{1F4BE}";case"Utility":return"\u{1F527}";case"Infrastructure":return"\u{1F3D7}\uFE0F";case"Test":return"\u{1F9EA}";case"Types":return"\u{1F4DD}";default:return"\u2753"}};o.forEach(l=>{let p=r.layers[l],d=c>0?(p.count/c*100).toFixed(1):"0.0";console.log(`${a(l)} ${l.padEnd(14)} | ${p.count.toString().padStart(5)} files | ${d}%`)}),console.log(`
+Layer Distribution:`);let o=["Entry","Logic","Data","Utility","Infrastructure","Test","Types","Unknown"],c=Object.values(r.layers).reduce((l,p)=>l+p.count,0),a=l=>{switch(l){case"Entry":return"\u{1F6AA}";case"Logic":return"\u2699\uFE0F";case"Data":return"\u{1F4BE}";case"Utility":return"\u{1F527}";case"Infrastructure":return"\u{1F3D7}\uFE0F";case"Test":return"\u{1F9EA}";case"Types":return"\u{1F4DD}";default:return"\u2753"}};o.forEach(l=>{let p=r.layers[l],u=c>0?(p.count/c*100).toFixed(1):"0.0";console.log(`${a(l)} ${l.padEnd(14)} | ${p.count.toString().padStart(5)} files | ${u}%`)}),console.log(`
 Top Files by Layer:`),o.forEach(l=>{let p=r.layers[l];p.count!==0&&(console.log(`
-${a(l)} ${l}`),p.topFiles.forEach(d=>{console.log(`  - ${d.path} (${d.confidence}% conf)`),d.signals.length>0&&console.log(`    \u2514\u2500 ${d.signals.slice(0,1).join(", ")}`)}))});return}if(i==="scout"){let s=await qr({repoPath:n});console.log(s.content[0].text);return}if(i==="hologram"){let s=new ue(n);console.log(JSON.stringify(s.getSnapshot(),null,2));return}_.error(`Unknown recon mode: ${i}. Available: init, topography, scout, hologram`)}import jt from"path";U();var Ft=class{static extractSnippet(e,t,n=300){if(!e||!t)return"";let s=t.toLowerCase().split(/\s+/).filter(u=>u.length>2&&!["the","and","for","with","from"].includes(u));if(s.length===0)return e.slice(0,n)+"...";let r=e.split(`
-`),o=new Array(r.length).fill(0);for(let u=0;u<r.length;u++){let m=r[u].toLowerCase(),f=0,h=0;for(let b of s)m.includes(b)&&(f++,h++);(m.includes("export ")||m.includes("class ")||m.includes("function ")||m.includes("interface "))&&(f+=1),o[u]=h*10+f}let c=0,a=-1,l=5;for(let u=0;u<=r.length-l;u++){let m=0;for(let f=0;f<l;f++)m+=o[u+f];m>a&&(a=m,c=u)}if(a<=0)return e.slice(0,n).trim()+"...";let d=r.slice(c,c+l).join(`
-`).trim();return c>0&&(d=`...
-`+d),c+l<r.length&&(d=d+`
-...`),d.length>n?d.slice(0,n)+"...":d}static calculateLexicalScore(e,t){if(!e||!t)return 0;let n=t.toLowerCase().split(/\s+/).filter(o=>o.length>2&&!["the","and","for","with","from"].includes(o));if(n.length===0)return 0;let s=0,r=e.toLowerCase();for(let o of n)if(r.includes(o)){s+=1;let c=new RegExp(`\\b${o}`,"gi"),a=r.match(c);a&&(s+=Math.min(a.length*.2,2)),new RegExp(`(class|function|export|interface|enum|type)\\s+${o}`,"i").test(e)&&(s+=1.5)}return s/n.length}};U();P();var Ue=_.child({module:"clean-sweep"}),Rs=class{files;intentLogs;constructor(e){let{files:t,intentLogs:n}=C.getInstance(e);this.files=t,this.intentLogs=n}pruneOrphans(){Ue.info("Starting orphan pruning...");let e=0,t=0,n=this.intentLogs.findOrphans();Ue.info({orphanCount:n.length},"Found orphaned logs");for(let o of n)o.file_path&&this.files.exists(o.file_path)?(this.intentLogs.markAsLapsed(o.id),t++,Ue.debug({logId:o.id,symbolName:o.symbol_name},"Converted to lapsed intent")):(this.intentLogs.delete(o.id),e++,Ue.debug({logId:o.id},"Deleted orphaned log"));let s=this.intentLogs.findLogsForMissingFiles();for(let o of s)this.intentLogs.delete(o.id),e++;let r=this.intentLogs.findRecentDecisionActivity(1e3).length;return Ue.info({deleted:e,converted:t},"Orphan pruning complete"),{deleted:e,converted:t,retained:r}}},vs=class{lambda;constructor(e=.01){this.lambda=e}calculateScore(e,t){let s=(Math.floor(Date.now()/1e3)-t)/(3600*24),r=Math.exp(-this.lambda*s);return e*r}scoreResults(e){return e.map(t=>({...t,decayed_score:this.calculateScore(t.score,t.created_at)}))}},ws=class{missions;constructor(e){let{missions:t}=C.getInstance(e);this.missions=t}findColdMissions(){let e=Math.floor(Date.now()/1e3)-604800,t=this.missions.findColdMissions(e,10);return Ue.info({count:t.length},"Found cold missions for compaction"),t}markDistilled(e){this.missions.update(e,{status:"distilled"})}},Nn=class{pruner;scorer;compactor;constructor(e){this.pruner=new Rs(e),this.scorer=new vs,this.compactor=new ws(e)}runMaintenance(){Ue.info("Initiating Clean Sweep maintenance protocol...");let e=this.pruner.pruneOrphans(),t=this.compactor.findColdMissions();return Ue.info("Clean Sweep maintenance complete"),{pruning:e,compaction:{eligible:t.length}}}getScorer(){return this.scorer}getCompactor(){return this.compactor}};U();P();var Vr=_.child({module:"lineage-service"}),nt=class{repoPath;constructor(e){this.repoPath=e}getAncestorMissionIds(e=50){try{let t=Vi(this.repoPath,e);if(t.length===0)return[];let{missions:n}=C.getInstance(this.repoPath),r=n.findByCommitShas(t).map(o=>o.id);return r.length>0&&Vr.debug({count:r.length},"Identified ancestor missions for gravity bleed"),r}catch(t){return Vr.warn({err:t.message},"Failed to identify ancestor missions"),[]}}};var xc={Solid:1,Liquid:.8,Virtual:.4,Intel:.2,Phantom:.05},be=class{static classify(e,t){let n=e.toLowerCase();if(t?.content){let s=t.content;if(s.includes("describe(")||s.includes("test(")||s.includes("it(")||s.includes("expect(")||s.includes('from "@jest/globals"')||s.includes('from "vitest"'))return"Virtual"}return t?.exports&&(t.exports.some(r=>r.kind==="ClassDeclaration"||r.kind==="Class")||t.exports.length>5),n.includes("/dist/")||n.includes("/build/")||n.includes("/.generated/")||n.includes("/node_modules/")||n.endsWith(".map")||n.endsWith(".log")?"Phantom":n.includes("/test/")||n.includes("/tests/")||n.includes("/__tests__/")||n.includes("/__mocks__/")||n.includes(".spec.")||n.includes(".test.")||n.includes("/e2e/")||n.includes("/test-utils/")?"Virtual":n.includes("/examples/")||n.includes("/fixtures/")||n.includes("/mocks/")||n.includes("/stories/")||n.includes("/samples/")||n.includes("/docs/")?"Intel":n.includes("/src/")||n.includes("/lib/")||n.includes("/app/")||n.includes("/core/")||n.includes("/logic/")||n.includes("/domain/")||n.includes("/services/")||n.includes("/controllers/")||n.includes("/handlers/")||n.includes("/repositories/")||n.includes("/models/")||n.includes("/packages/")&&!n.includes("/packages/config/")||n.includes("/backends/")||t?.exports&&(t.exports.some(s=>s.kind==="ClassDeclaration"||s.kind==="Class")||t.exports.length>5)?"Solid":"Liquid"}static mapClassificationToTier(e){let t=e.toLowerCase();return t==="service"||t==="repository"||t==="model"||t==="controller"||t==="handler"||t==="component"||t==="hook"||t==="titanium"||t==="solid"?"Solid":t==="test"||t==="iron"||t==="virtual"?"Virtual":t==="lead"||t==="intel"?"Intel":t==="ghost"||t==="error"||t==="phantom"?"Phantom":"Liquid"}static getMultiplier(e,t){let n=t?this.mapClassificationToTier(t):this.classify(e);return xc[n]}};P();function Tc(i,e){let t=[];for(let n=0;n<=e.length;n++)t[n]=[n];for(let n=0;n<=i.length;n++)t[0][n]=n;for(let n=1;n<=e.length;n++)for(let s=1;s<=i.length;s++)e.charAt(n-1)===i.charAt(s-1)?t[n][s]=t[n-1][s-1]:t[n][s]=Math.min(t[n-1][s-1]+1,t[n][s-1]+1,t[n-1][s]+1);return t[e.length][i.length]}function Rc(i,e){let t=Tc(i.toLowerCase(),e.toLowerCase()),n=Math.max(i.length,e.length);return Math.round((n-t)/n*100)}function Qr(i){let e=[],t="";for(let n=0;n<i.length;n++){let s=i[n],r=s>="A"&&s<="Z",o=s>="a"&&s<="z";r&&t.length>0?(e.push(t),t=s):o||r?t+=s:t.length>0&&(e.push(t),t="")}return t.length>0&&e.push(t),e}function vc(i,e){let t=Qr(e),n=i.toLowerCase();if(t.map(o=>o[0].toLowerCase()).join("")===n)return!0;let r=0;for(let o of t){if(r>=i.length)break;let c=o.toLowerCase();if(c.startsWith(n.slice(r))){r=i.length;break}c[0]===n[r]&&r++}return r===i.length}function wc(i,e){return Qr(e).map(s=>s[0].toLowerCase()).join("")===i.toLowerCase()}function Ic(i,e){let t=i.toLowerCase(),n=e.toLowerCase();if(i===e)return{matchType:"exact",score:100};if(t===n)return{matchType:"exact-case-insensitive",score:98};if(n.startsWith(t))return{matchType:"prefix",score:90+i.length/e.length*8};if(n.endsWith(t))return{matchType:"suffix",score:80+i.length/e.length*8};if(n.includes(t)){let r=i.length/e.length,o=n.indexOf(t)/e.length;return{matchType:"substring",score:70+r*10-o*5}}return wc(i,e)?{matchType:"acronym",score:75}:vc(i,e)?{matchType:"camel-case",score:65}:{matchType:"levenshtein",score:Rc(i,e)*.6}}function Ht(i,e,t=50,n=5){let s=[];for(let r of e){let{matchType:o,score:c}=Ic(i,r);if(c>=t){let l={exact:1e3,"exact-case-insensitive":900,prefix:800,suffix:700,substring:600,acronym:550,"camel-case":500,levenshtein:100}[o]+c;s.push({match:r,score:c,matchType:o,rank:l})}}return s.sort((r,o)=>o.rank!==r.rank?o.rank-r.rank:o.score!==r.score?o.score-r.score:r.match.length-o.match.length),s.slice(0,n)}dt();var Be=class i{constructor(e){this.repoPath=e}get filesRepo(){return C.getInstance(this.repoPath).files}get exportsRepo(){return C.getInstance(this.repoPath).exports}static normalizeFileType(e){if(e==null)return;let t=Array.isArray(e)?e:e.split(",").map(n=>n.trim().replace(/^\./,""));return t.filter(Boolean).length?t:void 0}static matchesFilters(e,t,n,s){if(t.fileType?.length){let r=e.replace(/^.*\./,"").toLowerCase();if(!t.fileType.some(o=>o.toLowerCase()===r))return!1}if(t.layer!=null||t.excludeLayers&&t.excludeLayers.length>0){let r=s!=null?be.mapClassificationToTier(s):be.classify(e);if(t.layer!=null&&r!==t.layer||t.excludeLayers?.includes(r))return!1}return!0}async searchByPath(e,t,n,s,r,o=!1){let c=e.toLowerCase().split(/\s+/).filter(Boolean),a=this.filesRepo.findByPathKeywords(c,Math.min((t??50)*(r?ae.FILTERED_QUERY_LIMIT_MULTIPLIER:1),at.MAX_LIMIT));r&&(a=a.filter(d=>i.matchesFilters(d.path,s,d.mtime,d.classification)),a=a.slice(0,t??50));let l=d=>d.replace(this.repoPath,"").replace(/^\//,"");if(a.length===0)return{content:[{type:"text",text:`No indexed files match path/filename: "${e}".
+${a(l)} ${l}`),p.topFiles.forEach(u=>{console.log(`  - ${u.path} (${u.confidence}% conf)`),u.signals.length>0&&console.log(`    \u2514\u2500 ${u.signals.slice(0,1).join(", ")}`)}))});return}if(i==="scout"){let s=await fo({repoPath:n});console.log(s.content[0].text);return}if(i==="hologram"){let s=new ge(n);console.log(JSON.stringify(s.getSnapshot(),null,2));return}S.error(`Unknown recon mode: ${i}. Available: init, topography, scout, hologram`)}import nn from"path";z();var Xt=class{static extractSnippet(e,t,n=300){if(!e||!t)return"";let s=t.toLowerCase().split(/\s+/).filter(d=>d.length>2&&!["the","and","for","with","from"].includes(d));if(s.length===0)return e.slice(0,n)+"...";let r=e.split(`
+`),o=new Array(r.length).fill(0);for(let d=0;d<r.length;d++){let m=r[d].toLowerCase(),h=0,g=0;for(let _ of s)m.includes(_)&&(h++,g++);(m.includes("export ")||m.includes("class ")||m.includes("function ")||m.includes("interface "))&&(h+=1),o[d]=g*10+h}let c=0,a=-1,l=5;for(let d=0;d<=r.length-l;d++){let m=0;for(let h=0;h<l;h++)m+=o[d+h];m>a&&(a=m,c=d)}if(a<=0)return e.slice(0,n).trim()+"...";let u=r.slice(c,c+l).join(`
+`).trim();return c>0&&(u=`...
+`+u),c+l<r.length&&(u=u+`
+...`),u.length>n?u.slice(0,n)+"...":u}static calculateLexicalScore(e,t){if(!e||!t)return 0;let n=t.toLowerCase().split(/\s+/).filter(o=>o.length>2&&!["the","and","for","with","from"].includes(o));if(n.length===0)return 0;let s=0,r=e.toLowerCase();for(let o of n)if(r.includes(o)){s+=1;let c=new RegExp(`\\b${o}`,"gi"),a=r.match(c);a&&(s+=Math.min(a.length*.2,2)),new RegExp(`(class|function|export|interface|enum|type)\\s+${o}`,"i").test(e)&&(s+=1.5)}return s/n.length}};rt();z();W();var et=S.child({module:"clean-sweep"}),Us=class{files;intentLogs;constructor(e){let{files:t,intentLogs:n}=C.getInstance(e);this.files=t,this.intentLogs=n}pruneOrphans(){et.info("Starting orphan pruning...");let e=0,t=0,n=this.intentLogs.findOrphans();et.info({orphanCount:n.length},"Found orphaned logs");for(let o of n)o.file_path&&this.files.exists(o.file_path)?(this.intentLogs.markAsLapsed(o.id),t++,et.debug({logId:o.id,symbolName:o.symbol_name},"Converted to lapsed intent")):(this.intentLogs.delete(o.id),e++,et.debug({logId:o.id},"Deleted orphaned log"));let s=this.intentLogs.findLogsForMissingFiles();for(let o of s)this.intentLogs.delete(o.id),e++;let r=this.intentLogs.findRecentDecisionActivity(1e3).length;return et.info({deleted:e,converted:t},"Orphan pruning complete"),{deleted:e,converted:t,retained:r}}},js=class{lambda;constructor(e=.01){this.lambda=e}calculateScore(e,t){let s=(Math.floor(Date.now()/1e3)-t)/(3600*24),r=Math.exp(-this.lambda*s);return e*r}scoreResults(e){return e.map(t=>({...t,decayed_score:this.calculateScore(t.score,t.created_at)}))}},zs=class{missions;constructor(e){let{missions:t}=C.getInstance(e);this.missions=t}findColdMissions(){let e=Math.floor(Date.now()/1e3)-604800,t=this.missions.findColdMissions(e,10);return et.info({count:t.length},"Found cold missions for compaction"),t}markDistilled(e){this.missions.update(e,{status:"distilled"})}},Yn=class{pruner;scorer;compactor;constructor(e){this.pruner=new Us(e),this.scorer=new js,this.compactor=new zs(e)}runMaintenance(){et.info("Initiating Clean Sweep maintenance protocol...");let e=this.pruner.pruneOrphans(),t=this.compactor.findColdMissions();return et.info("Clean Sweep maintenance complete"),{pruning:e,compaction:{eligible:t.length}}}getScorer(){return this.scorer}getCompactor(){return this.compactor}};z();W();var bo=S.child({module:"lineage-service"}),Zt=class{repoPath;constructor(e){this.repoPath=e}getAncestorMissionIds(e=50){try{let t=gr(this.repoPath,e);if(t.length===0)return[];let{missions:n}=C.getInstance(this.repoPath),r=n.findByCommitShas(t).map(o=>o.id);return r.length>0&&bo.debug({count:r.length},"Identified ancestor missions for gravity bleed"),r}catch(t){return bo.warn({err:t.message},"Failed to identify ancestor missions"),[]}}};var il={Solid:1,Liquid:.8,Virtual:.4,Intel:.2,Phantom:.05},ke=class{static classify(e,t){let n=e.toLowerCase();if(t?.content){let s=t.content;if(s.includes("describe(")||s.includes("test(")||s.includes("it(")||s.includes("expect(")||s.includes('from "@jest/globals"')||s.includes('from "vitest"'))return"Virtual"}return t?.exports&&(t.exports.some(r=>r.kind==="ClassDeclaration"||r.kind==="Class")||t.exports.length>5),n.includes("/dist/")||n.includes("/build/")||n.includes("/.generated/")||n.includes("/node_modules/")||n.endsWith(".map")||n.endsWith(".log")?"Phantom":n.includes("/test/")||n.includes("/tests/")||n.includes("/__tests__/")||n.includes("/__mocks__/")||n.includes(".spec.")||n.includes(".test.")||n.includes("/e2e/")||n.includes("/test-utils/")?"Virtual":n.includes("/examples/")||n.includes("/fixtures/")||n.includes("/mocks/")||n.includes("/stories/")||n.includes("/samples/")||n.includes("/docs/")?"Intel":n.includes("/src/")||n.includes("/lib/")||n.includes("/app/")||n.includes("/core/")||n.includes("/logic/")||n.includes("/domain/")||n.includes("/services/")||n.includes("/controllers/")||n.includes("/handlers/")||n.includes("/repositories/")||n.includes("/models/")||n.includes("/packages/")&&!n.includes("/packages/config/")||n.includes("/backends/")||t?.exports&&(t.exports.some(s=>s.kind==="ClassDeclaration"||s.kind==="Class")||t.exports.length>5)?"Solid":"Liquid"}static mapClassificationToTier(e){let t=e.toLowerCase();return t==="service"||t==="repository"||t==="model"||t==="controller"||t==="handler"||t==="component"||t==="hook"||t==="titanium"||t==="solid"?"Solid":t==="test"||t==="iron"||t==="virtual"?"Virtual":t==="lead"||t==="intel"?"Intel":t==="ghost"||t==="error"||t==="phantom"?"Phantom":"Liquid"}static getMultiplier(e,t){let n=t?this.mapClassificationToTier(t):this.classify(e);return il[n]}};W();function rl(i,e){let t=[];for(let n=0;n<=e.length;n++)t[n]=[n];for(let n=0;n<=i.length;n++)t[0][n]=n;for(let n=1;n<=e.length;n++)for(let s=1;s<=i.length;s++)e.charAt(n-1)===i.charAt(s-1)?t[n][s]=t[n-1][s-1]:t[n][s]=Math.min(t[n-1][s-1]+1,t[n][s-1]+1,t[n-1][s]+1);return t[e.length][i.length]}function ol(i,e){let t=rl(i.toLowerCase(),e.toLowerCase()),n=Math.max(i.length,e.length);return Math.round((n-t)/n*100)}function _o(i){let e=[],t="";for(let n=0;n<i.length;n++){let s=i[n],r=s>="A"&&s<="Z",o=s>="a"&&s<="z";r&&t.length>0?(e.push(t),t=s):o||r?t+=s:t.length>0&&(e.push(t),t="")}return t.length>0&&e.push(t),e}function al(i,e){let t=_o(e),n=i.toLowerCase();if(t.map(o=>o[0].toLowerCase()).join("")===n)return!0;let r=0;for(let o of t){if(r>=i.length)break;let c=o.toLowerCase();if(c.startsWith(n.slice(r))){r=i.length;break}c[0]===n[r]&&r++}return r===i.length}function cl(i,e){return _o(e).map(s=>s[0].toLowerCase()).join("")===i.toLowerCase()}function ll(i,e){let t=i.toLowerCase(),n=e.toLowerCase();if(i===e)return{matchType:"exact",score:100};if(t===n)return{matchType:"exact-case-insensitive",score:98};if(n.startsWith(t))return{matchType:"prefix",score:90+i.length/e.length*8};if(n.endsWith(t))return{matchType:"suffix",score:80+i.length/e.length*8};if(n.includes(t)){let r=i.length/e.length,o=n.indexOf(t)/e.length;return{matchType:"substring",score:70+r*10-o*5}}return cl(i,e)?{matchType:"acronym",score:75}:al(i,e)?{matchType:"camel-case",score:65}:{matchType:"levenshtein",score:ol(i,e)*.6}}function en(i,e,t=50,n=5){let s=[];for(let r of e){let{matchType:o,score:c}=ll(i,r);if(c>=t){let l={exact:1e3,"exact-case-insensitive":900,prefix:800,suffix:700,substring:600,acronym:550,"camel-case":500,levenshtein:100}[o]+c;s.push({match:r,score:c,matchType:o,rank:l})}}return s.sort((r,o)=>o.rank!==r.rank?o.rank-r.rank:o.score!==r.score?o.score-r.score:r.match.length-o.match.length),s.slice(0,n)}Rt();var tt=class i{constructor(e){this.repoPath=e}get filesRepo(){return C.getInstance(this.repoPath).files}get exportsRepo(){return C.getInstance(this.repoPath).exports}get intentLogsRepo(){return C.getInstance(this.repoPath).intentLogs}static normalizeFileType(e){if(e==null)return;let t=Array.isArray(e)?e:e.split(",").map(n=>n.trim().replace(/^\./,""));return t.filter(Boolean).length?t:void 0}static matchesFilters(e,t,n,s){if(t.fileType?.length){let r=e.replace(/^.*\./,"").toLowerCase();if(!t.fileType.some(o=>o.toLowerCase()===r))return!1}if(t.layer!=null||t.excludeLayers&&t.excludeLayers.length>0){let r=s!=null?ke.mapClassificationToTier(s):ke.classify(e);if(t.layer!=null&&r!==t.layer||t.excludeLayers?.includes(r))return!1}return!0}async searchByPath(e,t,n,s,r,o=!1){let c=e.toLowerCase().split(/\s+/).filter(Boolean),a=this.filesRepo.findByPathKeywords(c,Math.min((t??50)*(r?me.FILTERED_QUERY_LIMIT_MULTIPLIER:1),Et.MAX_LIMIT));r&&(a=a.filter(u=>i.matchesFilters(u.path,s,u.mtime,u.classification)),a=a.slice(0,t??50));let l=u=>u.replace(this.repoPath,"").replace(/^\//,"");if(a.length===0)return{content:[{type:"text",text:`No indexed files match path/filename: "${e}".
 
-If the repo is not indexed, run shadow_recon_onboard then shadow_sync_trace. Otherwise try broader keywords.`}]};if(o){let u=new ue(this.repoPath).getSection("gravity"),m=new Map;if(u?.hotspots)for(let b of u.hotspots){let y=m.get(b.filePath)||0;m.set(b.filePath,y+b.gravity)}let f=a.map(b=>{let y=m.get(b.path)||0,g=b.classification?be.mapClassificationToTier(b.classification):be.classify(b.path);return{...b,gravity:y,layer:g}});return f.sort((b,y)=>y.gravity-b.gravity),{content:[{type:"text",text:`# Resolved paths: "${e}" (Ranked by Gravity)
+If the repo is not indexed, run shadow_recon_onboard then shadow_sync_trace. Otherwise try broader keywords.`}]};if(o){let d=new ge(this.repoPath).getSection("gravity"),m=new Map;if(d?.hotspots)for(let _ of d.hotspots){let b=m.get(_.filePath)||0;m.set(_.filePath,b+_.gravity)}let h=a.map(_=>{let b=m.get(_.path)||0,y=_.classification?ke.mapClassificationToTier(_.classification):ke.classify(_.path);return{..._,gravity:b,layer:y}});return h.sort((_,b)=>b.gravity-_.gravity),{content:[{type:"text",text:`# Resolved paths: "${e}" (Ranked by Gravity)
 
-${f.length} file(s):
+${h.length} file(s):
 
-`+f.map((b,y)=>{let g=b.gravity>50?" \u269B\uFE0F":b.gravity>0?" \u2022":"",S=b.gravity>0?` [G:${Math.round(b.gravity)}]`:"";return`${y+1}. \`${l(b.path)}\` (${b.layer})${g}${S}`}).join(`
+`+h.map((_,b)=>{let y=_.gravity>50?" \u269B\uFE0F":_.gravity>0?" \u2022":"",E=_.gravity>0?` [G:${Math.round(_.gravity)}]`:"";return`${b+1}. \`${l(_.path)}\` (${_.layer})${y}${E}`}).join(`
 `)+`
 
 > **Legend**: \u269B\uFE0F = High-gravity hotspot (>50), \u2022 = Has gravity, G = Gravity score`}]}}return{content:[{type:"text",text:`# Resolved paths: "${e}"
 
 ${a.length} file(s):
 
-`+a.map((d,u)=>`${u+1}. \`${l(d.path)}\`${d.classification?` (${d.classification})`:""}`).join(`
-`)}]}}async searchByConcept(e,t,n,s,r,o=!1){_.info({repoPath:this.repoPath,query:e},"Searching by concept (Semantic Analysis)...");let c=await rs(e),a=g=>g.replace(this.repoPath,"").replace(/^\//,"");if(c){let g=await this.findConceptMatches(e,c,s,r,t*2,0);if(g.length>0){let S=g.length,R=g.slice(n,n+t),T=n+t<S?`
-> **Note**: More results available. Use \`offset: ${n+t}\` to see the next page.`:"",v=o?`
-> _Compact mode: snippets omitted_`:S>20&&!o?"\n> \u{1F4A1} **Tip**: Use `compact: true` to reduce output size (omits snippets).":"",k=`# Semantic Concept Search: "${e}"
+`+a.map((u,d)=>`${d+1}. \`${l(u.path)}\`${u.classification?` (${u.classification})`:""}`).join(`
+`)}]}}async searchByConcept(e,t,n,s,r,o=!1){S.info({repoPath:this.repoPath,query:e},"Searching by concept (Semantic Analysis)...");let c=await gn(e),a=y=>y.replace(this.repoPath,"").replace(/^\//,"");if(c){let y=await this.findConceptMatches(e,c,s,r,t*2,0),E=this.findIntentLogMatches(c,5);if(y.length>0||E.length>0){let w=y.length,x=y.slice(n,n+t),k=n+t<w?`
+> **Note**: More results available. Use \`offset: ${n+t}\` to see the next page.`:"",N=o?`
+> _Compact mode: snippets omitted_`:w>20&&!o?"\n> \u{1F4A1} **Tip**: Use `compact: true` to reduce output size (omits snippets).":"",O=`# Semantic Concept Search: "${e}"
 
-Showing ${R.length} of ${S} relevant file(s) (offset: ${n}, limit: ${t})${T}${v}
+Showing ${x.length} of ${w} relevant file(s) (offset: ${n}, limit: ${t})${k}${N}
 
-`,x=new ue(this.repoPath).getSection("gravity"),I=new Map;if(x?.hotspots)for(let $ of x.hotspots)I.set($.filePath,$.gravity);return{content:[{type:"text",text:o?k+R.map(($,j)=>{let H=a($.path),N=Math.round(($.decayedScore||0)*100),A=I.get($.path)?" \u269B\uFE0F":"";return`${n+j+1}. \`${H}\`${A} (${N}%) - ${$.summary||"No summary"}`}).join(`
-`):k+R.map(($,j)=>{let H=a($.path),N=Math.round(($.decayedScore||0)*100),L=I.get($.path),A=L?" \u269B\uFE0F **CORE**":"",D=L&&L>50?`
-> \u26A0\uFE0F **STRATEGIC RISK**: High-gravity hotspot (${L.toFixed(0)}). Modifications may have significant architectural impact.`:"";return`## ${n+j+1}. ${H}${A} (${N}% Match)
-> **Rationale**: ${$.rationale}${D}
+`,I=new ge(this.repoPath).getSection("gravity"),U=new Map;if(I?.hotspots)for(let P of I.hotspots)U.set(P.filePath,P.gravity);let H=o?O+x.map((P,R)=>{let A=a(P.path),D=Math.round((P.decayedScore||0)*100),L=U.get(P.path)?" \u269B\uFE0F":"";return`${n+R+1}. \`${A}\`${L} (${D}%) - ${P.summary||"No summary"}`}).join(`
+`):O+x.map((P,R)=>{let A=a(P.path),D=Math.round((P.decayedScore||0)*100),$=U.get(P.path),L=$?" \u269B\uFE0F **CORE**":"",Y=$&&$>50?`
+> \u26A0\uFE0F **STRATEGIC RISK**: High-gravity hotspot (${$.toFixed(0)}). Modifications may have significant architectural impact.`:"";return`## ${n+R+1}. ${A}${L} (${D}% Match)
+> **Rationale**: ${P.rationale}${Y}
 
-`+($.snippet?`**Matched Snippet**:
+`+(P.snippet?`**Matched Snippet**:
 \`\`\`typescript
-${$.snippet}
+${P.snippet}
 \`\`\`
 
-`:"")+`**Summary**: ${$.summary||"No summary available"}
+`:"")+`**Summary**: ${P.summary||"No summary available"}
 `}).join(`
-`)}]}}}let l=e.replace(/[^\w\s]/g," ").trim(),p=this.filesRepo.findFts(l,(t+n)*(r?ae.FILTERED_QUERY_LIMIT_MULTIPLIER:1));r&&(p=p.filter(g=>i.matchesFilters(g.path,s,g.mtime,g.classification)));let d=p.slice(n,n+t);if(d.length===0&&n===0){let g=this.filesRepo.getStats(),S=e.toLowerCase().split(/\s+/),R=this.filesRepo.findByPathKeywords(S,t);return r&&(R=R.filter(w=>i.matchesFilters(w.path,s,w.mtime,w.classification))),R.length>0?{content:[{type:"text",text:`# Concept Search: "${e}"
+`);return E.length>0&&(H+=`
+
+---
+## Intent Vectors (${E.length} matching decision(s))
 
-\u26A0\uFE0F No semantic matches in file summaries (${g.withSummary}/${g.total} indexed).
+`,H+=E.map((P,R)=>{let A=Math.round((P.score||0)*100),D=P.symbolName?` \`${P.symbolName}\``:"",$=P.missionId?` [Mission #${P.missionId}]`:"",L=P.content.length>200?P.content.slice(0,200)+"...":P.content;return o?`${R+1}. **[${P.type}]**${D}${$} (${A}%) - ${L}`:`### ${R+1}. [${P.type}]${D}${$} (${A}% Match)
+> ${L}
+`}).join(`
+`)),{content:[{type:"text",text:H}]}}}let l=e.replace(/[^\w\s]/g," ").trim(),p=this.filesRepo.findFts(l,(t+n)*(r?me.FILTERED_QUERY_LIMIT_MULTIPLIER:1));r&&(p=p.filter(y=>i.matchesFilters(y.path,s,y.mtime,y.classification)));let u=p.slice(n,n+t);if(u.length===0&&n===0){let y=this.filesRepo.getStats(),E=e.toLowerCase().split(/\s+/),w=this.filesRepo.findByPathKeywords(E,t);return r&&(w=w.filter(x=>i.matchesFilters(x.path,s,x.mtime,x.classification))),w.length>0?{content:[{type:"text",text:`# Concept Search: "${e}"
 
-Found ${R.length} file(s) with matching paths:
+\u26A0\uFE0F No semantic matches in file summaries (${y.withSummary}/${y.total} indexed).
 
-`+R.map((T,v)=>`${v+1}. \`${a(T.path)}\` (${T.classification||"Unknown"})`).join(`
+Found ${w.length} file(s) with matching paths:
+
+`+w.map((v,k)=>`${k+1}. \`${a(v.path)}\` (${v.classification||"Unknown"})`).join(`
 `)}]}:{content:[{type:"text",text:`No files found matching concept: "${e}"
 
-Summary Stats: ${g.withSummary}/${g.total} summaries.
+Summary Stats: ${y.withSummary}/${y.total} summaries.
 
-Try a symbol search: shadow_search_symbol({ query: "${e}", repoPath })`}]}}let u=p.length,f=n+t<u?`
-> Use \`offset: ${n+t}\` for more results.`:"",h=o?`
-> _Compact mode_`:u>20&&!o?"\n> \u{1F4A1} Use `compact: true` to reduce output size.":"",b=`# Concept Search (FTS Fallback): "${e}"
+Try a symbol search: shadow_search_symbol({ query: "${e}", repoPath })`}]}}let d=p.length,h=n+t<d?`
+> Use \`offset: ${n+t}\` for more results.`:"",g=o?`
+> _Compact mode_`:d>20&&!o?"\n> \u{1F4A1} Use `compact: true` to reduce output size.":"",_=`# Concept Search (FTS Fallback): "${e}"
 
-Showing ${d.length} of ${u} relevant file(s)${f}${h}
+Showing ${u.length} of ${d} relevant file(s)${h}${g}
 
-`;return{content:[{type:"text",text:o?b+d.map((g,S)=>`${n+S+1}. \`${a(g.path)}\``).join(`
-`):b+d.map((g,S)=>`## ${n+S+1}. ${a(g.path)}
+`;return{content:[{type:"text",text:o?_+u.map((y,E)=>`${n+E+1}. \`${a(y.path)}\``).join(`
+`):_+u.map((y,E)=>`## ${n+E+1}. ${a(y.path)}
 
-**Summary**: ${g.summary||"No summary available"}
+**Summary**: ${y.summary||"No summary available"}
 `).join(`
-`)}]}}async searchBySymbol(e,t,n,s,r,o="any"){let c=e.toLowerCase(),a=x=>x.replace(this.repoPath,"").replace(/^\//,""),l=this.buildFtsQuery(e,o),p;try{p=this.exportsRepo.findFts(l,t+50)}catch{p=this.exportsRepo.findByPartialName(e,t+50)}if(p.length===0){let x=this.exportsRepo.getAllNames(5e3),I=e.trim().split(/\s+/).filter($=>$.length>0);if(I.length>1){let $=new Map;for(let H of I){let N=Ht(H,x,40,20);for(let L of N){let A=$.get(L.match);A?(A.terms.push(H),A.bestScore=Math.max(A.bestScore,L.score)):$.set(L.match,{terms:[H],bestScore:L.score})}}let j=Array.from($.entries()).sort((H,N)=>N[1].terms.length!==H[1].terms.length?N[1].terms.length-H[1].terms.length:N[1].bestScore-H[1].bestScore).slice(0,10);if(j.length>0){let H=j.map(([N,L])=>{let A=L.terms.join(", ");return`  \u2022 \`${N}\` (matches: ${A}, ${Math.round(L.bestScore)}%)`}).join(`
+`)}]}}async searchBySymbol(e,t,n,s,r,o="any"){let c=e.toLowerCase(),a=T=>T.replace(this.repoPath,"").replace(/^\//,""),l=this.buildFtsQuery(e,o),p;try{p=this.exportsRepo.findFts(l,t+50)}catch{p=this.exportsRepo.findByPartialName(e,t+50)}if(p.length===0){let T=this.exportsRepo.getAllNames(5e3),I=e.trim().split(/\s+/).filter(H=>H.length>0);if(I.length>1){let H=new Map;for(let R of I){let A=en(R,T,40,20);for(let D of A){let $=H.get(D.match);$?($.terms.push(R),$.bestScore=Math.max($.bestScore,D.score)):H.set(D.match,{terms:[R],bestScore:D.score})}}let P=Array.from(H.entries()).sort((R,A)=>A[1].terms.length!==R[1].terms.length?A[1].terms.length-R[1].terms.length:A[1].bestScore-R[1].bestScore).slice(0,10);if(P.length>0){let R=P.map(([A,D])=>{let $=D.terms.join(", ");return`  \u2022 \`${A}\` (matches: ${$}, ${Math.round(D.bestScore)}%)`}).join(`
 `);return{content:[{type:"text",text:`No symbols found matching all terms: "${e}"
 
 **Partial matches:**
-${H}
+${R}
 
-\u{1F4A1} Try searching for individual terms, or use shadow_search_concept for semantic search.`}]}}}else{let $=Ht(e,x,50,5);if($.length>0){let j=$.map(H=>`  \u2022 \`${H.match}\` (${Math.round(H.score)}% ${H.matchType} match)`).join(`
+\u{1F4A1} Try searching for individual terms, or use shadow_search_concept for semantic search.`}]}}}else{let H=en(e,T,50,5);if(H.length>0){let P=H.map(R=>`  \u2022 \`${R.match}\` (${Math.round(R.score)}% ${R.matchType} match)`).join(`
 `);return{content:[{type:"text",text:`No symbols found matching: "${e}"
 
 **Did you mean?**
-${j}
+${P}
 
 \u{1F4A1} Try shadow_search_symbol with fuzzy, or shadow_search_concept for semantic search.`}]}}}return{content:[{type:"text",text:`No symbols found matching: "${e}"
 
-\u{1F4A1} Try shadow_search_symbol (fuzzy) or shadow_search_concept for semantic search.`}]}}r&&(p=p.filter(x=>{let I=this.filesRepo.findByPath(x.file_path);return i.matchesFilters(x.file_path,s,I?.mtime,I?.classification)}));let d=new nt(this.repoPath),u=new ue(this.repoPath),m=d.getAncestorMissionIds(),f=re(this.repoPath)||void 0,h=this.exportsRepo.getGravityMap(m,f),b=u.getSection("gravity"),y=new Map;if(b?.hotspots)for(let x of b.hotspots)y.set(`${x.filePath}::${x.symbol}`,x.gravity);let g="\u{1F525}",S="\u26A1",R="\u269B\uFE0F",w=p.map((x,I)=>{let M=h[x.id],$=y.get(`${x.file_path}::${x.name}`),j=this.filesRepo.findByPath(x.file_path),H=be.getMultiplier(x.file_path,j?.classification),N=(ae.SCORE_BASE-I)*H;M&&(N+=M.score*ae.SCORE_BASE),$&&(N+=$*ae.SCORE_BASE*ae.GRAVITY_STRUCTURAL_WEIGHT),x.name.toLowerCase()===c&&(N+=ae.EXACT_MATCH_BONUS*H);let L=j?.mtime;if(L!=null){let D=L>1e10?L/1e3:L,te=(Date.now()/1e3-D)/ps.SECONDS_PER_DAY;te<ae.RECENT_FILE_THRESHOLD_DAYS?N+=ae.RECENT_FILE_BOOST:te<ae.OLDER_FILE_THRESHOLD_DAYS&&(N+=ae.OLDER_FILE_BOOST)}let A=[];return M&&A.push(...M.reasons),$&&A.push(`Structural Hotspot (Gravity: ${$.toFixed(1)})`),{...x,activeGravity:M,structuralGravity:$,sortScore:N,reasons:A}}).sort((x,I)=>I.sortScore-x.sortScore).slice(n,n+t),T=p.length,v=n+t<T,k=w.map((x,I)=>{let M=a(x.file_path),$=this.filesRepo.getContent(x.file_path),j="";if($){let L=$.split(`
-`);j=L.slice(Math.max(0,x.start_line-2),Math.min(L.length,x.start_line+3)).join(`
-`).trim()}let H=[];x.activeGravity&&(x.activeGravity.reasons.some(L=>L.includes("Working Set"))?H.push(g):x.activeGravity.reasons.some(L=>L.includes("Recent Intent"))&&H.push(S)),x.structuralGravity&&H.push(R);let N=H.length>0?` ${H.join("")}`:"";return{relPath:M,name:x.name,kind:x.kind,signature:x.signature,line:x.start_line,snippet:j,badgeStr:N,gravityReasons:x.reasons}});return{content:[{type:"text",text:`# Symbol Search Results: "${e}"
+\u{1F4A1} Try shadow_search_symbol (fuzzy) or shadow_search_concept for semantic search.`}]}}r&&(p=p.filter(T=>{let I=this.filesRepo.findByPath(T.file_path);return i.matchesFilters(T.file_path,s,I?.mtime,I?.classification)}));let u=new Zt(this.repoPath),d=new ge(this.repoPath),m=u.getAncestorMissionIds(),h=ce(this.repoPath)||void 0,g=this.exportsRepo.getGravityMap(m,h),_=d.getSection("gravity"),b=new Map;if(_?.hotspots)for(let T of _.hotspots)b.set(`${T.filePath}::${T.symbol}`,T.gravity);let y="\u{1F525}",E="\u26A1",w="\u269B\uFE0F",x=p.map((T,I)=>{let U=g[T.id],H=b.get(`${T.file_path}::${T.name}`),P=this.filesRepo.findByPath(T.file_path),R=ke.getMultiplier(T.file_path,P?.classification),A=(me.SCORE_BASE-I)*R;U&&(A+=U.score*me.SCORE_BASE),H&&(A+=H*me.SCORE_BASE*me.GRAVITY_STRUCTURAL_WEIGHT),T.name.toLowerCase()===c&&(A+=me.EXACT_MATCH_BONUS*R);let D=P?.mtime;if(D!=null){let L=D>1e10?D/1e3:D,Y=(Date.now()/1e3-L)/ks.SECONDS_PER_DAY;Y<me.RECENT_FILE_THRESHOLD_DAYS?A+=me.RECENT_FILE_BOOST:Y<me.OLDER_FILE_THRESHOLD_DAYS&&(A+=me.OLDER_FILE_BOOST)}let $=[];return U&&$.push(...U.reasons),H&&$.push(`Structural Hotspot (Gravity: ${H.toFixed(1)})`),{...T,activeGravity:U,structuralGravity:H,sortScore:A,reasons:$}}).sort((T,I)=>I.sortScore-T.sortScore).slice(n,n+t),v=p.length,k=n+t<v,N=x.map((T,I)=>{let U=a(T.file_path),H=this.filesRepo.getContent(T.file_path),P="";if(H){let D=H.split(`
+`);P=D.slice(Math.max(0,T.start_line-2),Math.min(D.length,T.start_line+3)).join(`
+`).trim()}let R=[];T.activeGravity&&(T.activeGravity.reasons.some(D=>D.includes("Working Set"))?R.push(y):T.activeGravity.reasons.some(D=>D.includes("Recent Intent"))&&R.push(E)),T.structuralGravity&&R.push(w);let A=R.length>0?` ${R.join("")}`:"";return{relPath:U,name:T.name,kind:T.kind,signature:T.signature,line:T.start_line,snippet:P,badgeStr:A,gravityReasons:T.reasons}});return{content:[{type:"text",text:`# Symbol Search Results: "${e}"
 
-Showing ${k.length} matching symbol(s)${v?` (use offset=${n+t} for more)`:""}:
+Showing ${N.length} matching symbol(s)${k?` (use offset=${n+t} for more)`:""}:
 
-`+k.map((x,I)=>{let M=`## ${n+I+1}. \`${x.name}\` (${x.kind})${x.badgeStr}
-**File**: \`${x.relPath}:${x.line}\`
-`;return x.gravityReasons&&(M+=`> *${x.gravityReasons.join(", ")}*
-`),x.signature&&(M+=`**Signature**: \`${x.signature}\`
-`),x.snippet&&(M+=`
+`+N.map((T,I)=>{let U=`## ${n+I+1}. \`${T.name}\` (${T.kind})${T.badgeStr}
+**File**: \`${T.relPath}:${T.line}\`
+`;return T.gravityReasons&&(U+=`> *${T.gravityReasons.join(", ")}*
+`),T.signature&&(U+=`**Signature**: \`${T.signature}\`
+`),T.snippet&&(U+=`
 \`\`\`typescript
-${x.snippet}
+${T.snippet}
 \`\`\`
-`),M}).join(`
-`)}]}}async findConceptMatches(e,t,n,s,r,o=0){let c=re(this.repoPath)||void 0;if(!t)return[];let a=this.filesRepo.findWithEmbeddings(),p=new Nn(this.repoPath).getScorer(),u=new nt(this.repoPath).getAncestorMissionIds(),m=[];for(let h of a)try{let b=JSON.parse(h.embedding),y=as(t,b),g=this.filesRepo.getContent(h.path),S=ae.ENABLE_LEXICAL_SCORING&&g?Ft.calculateLexicalScore(g,e):0,R=S>0?.1:.18;if(y>R){if(s&&!i.matchesFilters(h.path,n,h.mtime,h.classification))continue;let w=h.mtime>2e9?Math.floor(h.mtime/1e3):h.mtime,T=Math.floor(Date.now()/1e3)-ps.SECONDS_PER_YEAR,v=be.getMultiplier(h.path,h.classification),k=p.calculateScore(y,w||T);k*=v;let x=this.filesRepo.getGravityMap(u,c)[h.path],I=h.classification?be.mapClassificationToTier(h.classification):be.classify(h.path,{content:g??void 0}),M=`Similarity: ${(y*100).toFixed(0)}%, Tier: ${I}${v!==1?` (${v}x)`:""}`;S>0&&(k+=S*ae.LEXICAL_WEIGHT,M+=` | Lexical: +${S.toFixed(1)}`),x&&(k+=x.score,M+=` | \u{1F525} Gravity: +${x.score.toFixed(1)} (${x.reasons.join(", ")})`);let $=g?Ft.extractSnippet(g,e):void 0;m.push({path:h.path,summary:h.summary||"",score:y,decayedScore:k,rationale:M,snippet:$})}}catch{}let f=new Map;for(let h of m){let b=h.path.split("/").pop()?.split(".")[0].replace(/(Controller|Service|Repository|Component|View|Page|Handler|Wrapper|Client|DTO|Interface)$/i,"").toLowerCase();b&&b.length>3&&(f.has(b)||f.set(b,[]),f.get(b).push(h))}for(let[h,b]of f.entries())if(new Set(b.map(g=>g.path.split(".").pop())).size>1)for(let g of b)g.decayedScore=(g.decayedScore||0)+.15,g.rationale+=` | \u{1F310} Polyglot Flow: +0.15 (Linked via '${h}')`;return m.sort((h,b)=>(b.decayedScore||0)-(h.decayedScore||0)),m}buildFtsQuery(e,t){let n=e.trim();if(!n.includes(" "))return`"${n}" OR ${n}*`;let s=n.split(/\s+/).filter(r=>r.length>0);switch(t){case"exact":return`"${n}"`;case"all":return s.map(r=>`${r}*`).join(" ");default:return s.map(r=>`${r}*`).join(" OR ")}}};P();U();function An(i){let{fileType:e,layer:t}=i,n={fileType:Be.normalizeFileType(e),layer:t},s=!!(n.fileType?.length||n.layer!=null);return{filters:n,hasFilters:s}}async function Kr(i){let e=In(i.query??""),t={...i,query:e},n=fn();try{let{repoPath:s}=Re(t),{query:r,limit:o=at.DEFAULT_LIMIT,offset:c=0,compact:a=!1}=t;await z(s);let{filters:l,hasFilters:p}=An(t),u=await new Be(s).searchByConcept(r,o,c,l,p,a);return Cc(s,r,"concept"),n(),u}catch(s){return _.error({error:s,args:i},"Concept Search failed"),n(),await ot(),{content:[{type:"text",text:`Concept Search failed: ${s instanceof Error?s.message:String(s)}`}],isError:!0}}}function Cc(i,e,t){try{let n=C.getInstance(i),s=re(i);n.searchHistory.record(e,t,s)}catch(n){let s=re(i);_.error({module:"search",repoPath:i,query:e,mode:t,error:n instanceof Error?n.message:String(n),branch:s},"Failed to record search history"),ot()}}P();U();async function Is(i){let e=In(i.query??""),t={...i,query:e},n=fn();try{let{repoPath:s}=Re(t),{query:r,limit:o=at.DEFAULT_LIMIT,offset:c=0,matchMode:a="any"}=t;await z(s);let{filters:l,hasFilters:p}=An(t),u=await new Be(s).searchBySymbol(r,o,c,l,p,a);return $c(s,r,"symbol"),n(),u}catch(s){return _.error({error:s,args:i},"Symbol Search failed"),n(),await ot(),{content:[{type:"text",text:`Symbol Search failed: ${s instanceof Error?s.message:String(s)}`}],isError:!0}}}function $c(i,e,t){try{let n=C.getInstance(i),s=re(i);n.searchHistory.record(e,t,s)}catch(n){let s=re(i);_.error({module:"search",repoPath:i,query:e,mode:t,error:n instanceof Error?n.message:String(n),branch:s},"Failed to record search history"),ot()}}U();P();import Wt from"path";function Xr(i,e){let t=i.findContentByToken(e,100);return{count:t.length,files:t}}async function Zr(i){let{repoPath:e,query:t,key:n="",kind:s,limit:r=50,showUsage:o=!1}=i,c=n||t;if(!c&&!s)return{content:[{type:"text",text:'Error: Either "key" or "kind" parameter is required.'}]};await z(e);let a=C.getInstance(e),{configs:l,files:p}=a;if(c){_.info({repoPath:e,key:c},"Searching for config key in DB...");let f=l.findByKey(c,r);if(f.length===0)return{content:[{type:"text",text:`No configuration found for key: ${c}`}]};if(o){let y=f.map(w=>{let T=Xr(p,w.key),v=T.count===0?"\u26A0\uFE0F ORPHANED":`\u2713 ${T.count} usage(s)`;return{file:Wt.relative(e,w.file_path),key:w.key,value:w.value,kind:w.kind,usageCount:T.count,usageFiles:T.files.slice(0,5).map(k=>Wt.relative(e,k)),status:v}});y.sort((w,T)=>w.usageCount===0&&T.usageCount>0?-1:T.usageCount===0&&w.usageCount>0?1:w.usageCount-T.usageCount);let g=y.filter(w=>w.usageCount===0).length;return{content:[{type:"text",text:(g>0?`# Configuration Search: "${c}" (with Usage Analysis)
+`),U}).join(`
+`)}]}}async findConceptMatches(e,t,n,s,r,o=0){let c=ce(this.repoPath)||void 0;if(!t)return[];let a=this.filesRepo.findWithEmbeddings(),p=new Yn(this.repoPath).getScorer(),d=new Zt(this.repoPath).getAncestorMissionIds(),m=[];for(let g of a)try{let _=JSON.parse(g.embedding),b=Ft(t,_),y=this.filesRepo.getContent(g.path),E=me.ENABLE_LEXICAL_SCORING&&y?Xt.calculateLexicalScore(y,e):0,w=1;if(y){let v=/\b(class|function|const|let|var|enum)\s+\w+/.test(y);if(/export\s+/.test(y)&&!v){let N=y.replace(/\/\/.*$/gm,"").replace(/\/\*[\s\S]*?\*\//g,"");/\b(class|function|const|let|var|enum)\s+\w+/.test(N)||(w=.1)}}let x=E>0?.1:.18;if(b>x){if(s&&!i.matchesFilters(g.path,n,g.mtime,g.classification))continue;let v=g.mtime>2e9?Math.floor(g.mtime/1e3):g.mtime,k=Math.floor(Date.now()/1e3)-ks.SECONDS_PER_YEAR,N=ke.getMultiplier(g.path,g.classification),O=p.calculateScore(b,v||k);O*=N;let I=this.filesRepo.getGravityMap(d,c)[g.path],U=g.classification?ke.mapClassificationToTier(g.classification):ke.classify(g.path,{content:y??void 0}),H=`Similarity: ${(b*100).toFixed(0)}%, Tier: ${U}${N!==1?` (${N}x)`:""}`;E>0&&(O+=E*me.LEXICAL_WEIGHT,H+=` | Lexical: +${E.toFixed(1)}`),I&&(O+=I.score,H+=` | \u{1F525} Gravity: +${I.score.toFixed(1)} (${I.reasons.join(", ")})`),w<1&&(O*=w,H+=` | \u{1F4C9} Barrel: x${w}`);let P=y?Xt.extractSnippet(y,e):void 0;m.push({path:g.path,summary:g.summary||"",score:b,decayedScore:O,rationale:H,snippet:P})}}catch{}let h=new Map;for(let g of m){let _=g.path.split("/").pop()?.split(".")[0].replace(/(Controller|Service|Repository|Component|View|Page|Handler|Wrapper|Client|DTO|Interface)$/i,"").toLowerCase();_&&_.length>3&&(h.has(_)||h.set(_,[]),h.get(_).push(g))}for(let[g,_]of h.entries())if(new Set(_.map(y=>y.path.split(".").pop())).size>1)for(let y of _)y.decayedScore=(y.decayedScore||0)+.15,y.rationale+=` | \u{1F310} Polyglot Flow: +0.15 (Linked via '${g}')`;return m.sort((g,_)=>(_.decayedScore||0)-(g.decayedScore||0)),m}findIntentLogMatches(e,t){let n=this.intentLogsRepo.findWithEmbeddings(),s=[];for(let r of n)try{let o=JSON.parse(r.embedding),c=Ft(e,o);c>.25&&s.push({id:r.id,missionId:r.mission_id,type:r.type,content:r.content,symbolName:r.symbol_name,filePath:r.file_path,score:c,decayedScore:c,rationale:`Similarity: ${(c*100).toFixed(0)}%`,createdAt:r.created_at})}catch{}return s.sort((r,o)=>(o.decayedScore||0)-(r.decayedScore||0)),s.slice(0,t)}buildFtsQuery(e,t){let n=e.trim();if(!n.includes(" "))return`"${n}" OR ${n}*`;let s=n.split(/\s+/).filter(r=>r.length>0);switch(t){case"exact":return`"${n}"`;case"all":return s.map(r=>`${r}*`).join(" ");default:return s.map(r=>`${r}*`).join(" OR ")}}};W();z();function Vn(i){let{fileType:e,layer:t}=i,n={fileType:tt.normalizeFileType(e),layer:t},s=!!(n.fileType?.length||n.layer!=null);return{filters:n,hasFilters:s}}async function Eo(i){let e=zn(i.query??""),t={...i,query:e},n=In();try{let{repoPath:s}=Me(t),{query:r,limit:o=Et.DEFAULT_LIMIT,offset:c=0,compact:a=!1}=t;await G(s);let{filters:l,hasFilters:p}=Vn(t),d=await new tt(s).searchByConcept(r,o,c,l,p,a);return pl(s,r,"concept"),n(),d}catch(s){return S.error({error:s,args:i},"Concept Search failed"),n(),await yt(),{content:[{type:"text",text:`Concept Search failed: ${s instanceof Error?s.message:String(s)}`}],isError:!0}}}function pl(i,e,t){try{let n=C.getInstance(i),s=ce(i);n.searchHistory.record(e,t,s)}catch(n){let s=ce(i);S.error({module:"search",repoPath:i,query:e,mode:t,error:n instanceof Error?n.message:String(n),branch:s},"Failed to record search history"),yt()}}W();z();async function Bs(i){let e=zn(i.query??""),t={...i,query:e},n=In();try{let{repoPath:s}=Me(t),{query:r,limit:o=Et.DEFAULT_LIMIT,offset:c=0,matchMode:a="any"}=t;await G(s);let{filters:l,hasFilters:p}=Vn(t),d=await new tt(s).searchBySymbol(r,o,c,l,p,a);return dl(s,r,"symbol"),n(),d}catch(s){return S.error({error:s,args:i},"Symbol Search failed"),n(),await yt(),{content:[{type:"text",text:`Symbol Search failed: ${s instanceof Error?s.message:String(s)}`}],isError:!0}}}function dl(i,e,t){try{let n=C.getInstance(i),s=ce(i);n.searchHistory.record(e,t,s)}catch(n){let s=ce(i);S.error({module:"search",repoPath:i,query:e,mode:t,error:n instanceof Error?n.message:String(n),branch:s},"Failed to record search history"),yt()}}z();W();import tn from"path";function So(i,e){let t=i.findContentByToken(e,100);return{count:t.length,files:t}}async function wo(i){let{repoPath:e,query:t,key:n="",kind:s,limit:r=50,showUsage:o=!1}=i,c=n||t;if(!c&&!s)return{content:[{type:"text",text:'Error: Either "key" or "kind" parameter is required.'}]};await G(e);let a=C.getInstance(e),{configs:l,files:p}=a;if(c){S.info({repoPath:e,key:c},"Searching for config key in DB...");let h=l.findByKey(c,r);if(h.length===0)return{content:[{type:"text",text:`No configuration found for key: ${c}`}]};if(o){let b=h.map(x=>{let v=So(p,x.key),k=v.count===0?"\u26A0\uFE0F ORPHANED":`\u2713 ${v.count} usage(s)`;return{file:tn.relative(e,x.file_path),key:x.key,value:x.value,kind:x.kind,usageCount:v.count,usageFiles:v.files.slice(0,5).map(N=>tn.relative(e,N)),status:k}});b.sort((x,v)=>x.usageCount===0&&v.usageCount>0?-1:v.usageCount===0&&x.usageCount>0?1:x.usageCount-v.usageCount);let y=b.filter(x=>x.usageCount===0).length;return{content:[{type:"text",text:(y>0?`# Configuration Search: "${c}" (with Usage Analysis)
 
-\u26A0\uFE0F **${g} orphaned var(s)** (defined but never used in code)
+\u26A0\uFE0F **${y} orphaned var(s)** (defined but never used in code)
 
-Found ${f.length} match(es):
+Found ${h.length} match(es):
 
 `:`# Configuration Search: "${c}" (with Usage Analysis)
 
-Found ${f.length} match(es), all in use:
+Found ${h.length} match(es), all in use:
 
-`)+y.map(w=>{let T=`## ${w.file} (${w.kind}) ${w.status}
-**${w.key}**: \`${w.value}\``;return w.usageCount>0&&w.usageFiles.length>0&&(T+=`
-> Used in: ${w.usageFiles.map(v=>`\`${v}\``).join(", ")}${w.usageCount>5?` (+${w.usageCount-5} more)`:""}`),T}).join(`
+`)+b.map(x=>{let v=`## ${x.file} (${x.kind}) ${x.status}
+**${x.key}**: \`${x.value}\``;return x.usageCount>0&&x.usageFiles.length>0&&(v+=`
+> Used in: ${x.usageFiles.map(k=>`\`${k}\``).join(", ")}${x.usageCount>5?` (+${x.usageCount-5} more)`:""}`),v}).join(`
 
-`)}]}}let h=f.map(y=>({file:Wt.relative(e,y.file_path),key:y.key,value:y.value,kind:y.kind}));return{content:[{type:"text",text:`# Configuration Search: "${c}"
+`)}]}}let g=h.map(b=>({file:tn.relative(e,b.file_path),key:b.key,value:b.value,kind:b.kind}));return{content:[{type:"text",text:`# Configuration Search: "${c}"
 
-Found ${f.length} match(es):
+Found ${h.length} match(es):
 
-`+h.map(y=>`## ${y.file} (${y.kind})
-**${y.key}**: \`${y.value}\``).join(`
+`+g.map(b=>`## ${b.file} (${b.kind})
+**${b.key}**: \`${b.value}\``).join(`
 
-`)+"\n\n> \u{1F4A1} **Tip**: Use `showUsage: true` to see usage counts and identify orphaned vars."}]}}let d=l.findByKind(s||null,r);if(o){let f=d.map(g=>{let S=Xr(p,g.key);return{file:Wt.relative(e,g.file_path),key:g.key,value:g.value,kind:g.kind,usageCount:S.count,status:S.count===0?"ORPHANED":"in-use"}});f.sort((g,S)=>g.usageCount===0&&S.usageCount>0?-1:S.usageCount===0&&g.usageCount>0?1:g.usageCount-S.usageCount);let h=f.filter(g=>g.usageCount===0).length,b=f.length,y=`# Config Discovery (${s||"all"}) with Usage Analysis
+`)+"\n\n> \u{1F4A1} **Tip**: Use `showUsage: true` to see usage counts and identify orphaned vars."}]}}let u=l.findByKind(s||null,r);if(o){let h=u.map(y=>{let E=So(p,y.key);return{file:tn.relative(e,y.file_path),key:y.key,value:y.value,kind:y.kind,usageCount:E.count,status:E.count===0?"ORPHANED":"in-use"}});h.sort((y,E)=>y.usageCount===0&&E.usageCount>0?-1:E.usageCount===0&&y.usageCount>0?1:y.usageCount-E.usageCount);let g=h.filter(y=>y.usageCount===0).length,_=h.length,b=`# Config Discovery (${s||"all"}) with Usage Analysis
 
-`;return y+=`**Summary**: ${b} config(s) found, ${h} orphaned
+`;return b+=`**Summary**: ${_} config(s) found, ${g} orphaned
 
-`,h>0&&(y+=`## \u26A0\uFE0F Orphaned (${h})
-`,y+=f.filter(g=>g.usageCount===0).map(g=>`- \`${g.key}\` in ${g.file}`).join(`
-`),y+=`
+`,g>0&&(b+=`## \u26A0\uFE0F Orphaned (${g})
+`,b+=h.filter(y=>y.usageCount===0).map(y=>`- \`${y.key}\` in ${y.file}`).join(`
+`),b+=`
 
-`),y+=`## \u2713 In Use (${b-h})
-`,y+=f.filter(g=>g.usageCount>0).map(g=>`- \`${g.key}\` (${g.usageCount} usages)`).join(`
-`),d.length===r&&(y+=`
+`),b+=`## \u2713 In Use (${_-g})
+`,b+=h.filter(y=>y.usageCount>0).map(y=>`- \`${y.key}\` (${y.usageCount} usages)`).join(`
+`),u.length===r&&(b+=`
 
-> Results limited to ${r} entries. Use the 'limit' parameter to see more.`),{content:[{type:"text",text:y}]}}let u=d.map(f=>({...f,file:Wt.relative(e,f.file_path)})),m=JSON.stringify(u,null,2);return d.length===r&&(m=`Results limited to ${r} entries. Use the 'limit' parameter to see more.
+> Results limited to ${r} entries. Use the 'limit' parameter to see more.`),{content:[{type:"text",text:b}]}}let d=u.map(h=>({...h,file:tn.relative(e,h.file_path)})),m=JSON.stringify(d,null,2);return u.length===r&&(m=`Results limited to ${r} entries. Use the 'limit' parameter to see more.
 
-`+m),m+="\n\n> \u{1F4A1} **Tip**: Use `showUsage: true` to see usage counts and identify orphaned vars.",{content:[{type:"text",text:m}]}}U();import eo from"path";async function Mn(i){let{repoPath:e,filePath:t}=Re(i);if(!t)return{content:[{type:"text",text:"Error: filePath is required"}],isError:!0};let n=i.detailLevel||"signatures";await z(e);let{files:s,exports:r}=C.getInstance(e),o=s.findByPath(t),c=eo.basename(t),a=/\.(ts|tsx|php|py|go)$/.test(c),l;a?l=await $t(t):l={exports:r.findByFile(t),imports:[]},n==="structure"?(l.exports=l.exports.map(m=>{let f={name:m.name,kind:m.kind,line:m.start_line,classification:m.classification};return m.members&&m.members.length>0?{...f,members:m.members.map(h=>({name:`${m.name}.${h.name}`,kind:h.kind,line:h.start_line}))}:f}),delete l.imports):n==="signatures"&&(l.exports=l.exports.map(m=>{let f={name:m.name,kind:m.kind,signature:m.signature,line:m.start_line,classification:m.classification,capabilities:JSON.parse(m.capabilities||"[]")};return m.members&&m.members.length>0?{...f,members:m.members.map(h=>({name:`${m.name}.${h.name}`,kind:h.kind,signature:h.signature,line:h.start_line}))}:f}),delete l.imports);let p=eo.relative(e,t),d=l.exports?.length||0,u="";return n==="structure"&&d>0?u=`
+`+m),m+="\n\n> \u{1F4A1} **Tip**: Use `showUsage: true` to see usage counts and identify orphaned vars.",{content:[{type:"text",text:m}]}}z();import xo from"path";async function Qn(i){let{repoPath:e,filePath:t}=Me(i);if(!t)return{content:[{type:"text",text:"Error: filePath is required"}],isError:!0};let n=i.detailLevel||"signatures";await G(e);let{files:s,exports:r}=C.getInstance(e),o=s.findByPath(t),c=xo.basename(t),a=/\.(ts|tsx|php|py|go)$/.test(c),l;a?l=await jt(t):l={exports:r.findByFile(t),imports:[]},n==="structure"?(l.exports=l.exports.map(m=>{let h={name:m.name,kind:m.kind,line:m.start_line,classification:m.classification};return m.members&&m.members.length>0?{...h,members:m.members.map(g=>({name:`${m.name}.${g.name}`,kind:g.kind,line:g.start_line}))}:h}),delete l.imports):n==="signatures"&&(l.exports=l.exports.map(m=>{let h={name:m.name,kind:m.kind,signature:m.signature,line:m.start_line,classification:m.classification,capabilities:JSON.parse(m.capabilities||"[]")};return m.members&&m.members.length>0?{...h,members:m.members.map(g=>({name:`${m.name}.${g.name}`,kind:g.kind,signature:g.signature,line:g.start_line}))}:h}),delete l.imports);let p=xo.relative(e,t),u=l.exports?.length||0,d="";return n==="structure"&&u>0?d=`
 
-\u{1F4A1} Showing ${d} symbol names. For full signatures: shadow_inspect_file({ filePath: "${p}", detailLevel: "signatures" })`:n==="signatures"&&d>0&&(u=`
+\u{1F4A1} Showing ${u} symbol names. For full signatures: shadow_inspect_file({ filePath: "${p}", detailLevel: "signatures" })`:n==="signatures"&&u>0&&(d=`
 
-\u{1F4A1} Showing ${d} complete signatures. To inspect a specific symbol: shadow_inspect_symbol({ symbolName: "...", context: "full" })`),{content:[{type:"text",text:JSON.stringify({...l,fileDescription:o?.summary||"",classification:o?.classification||"Unknown"},null,2)+u}]}}U();import to from"path";import kc from"fs";function Lc(i,e,t){let n=i.split(`
-`),s=[],r=0;for(let d=0;d<Math.min(n.length,50);d++){let u=n[d].trim();if(u.startsWith("import ")||u.startsWith("from ")||u.startsWith("export ")&&u.includes(" from "))r=d+1;else if(u&&!u.startsWith("//")&&!u.startsWith("/*")&&!u.startsWith("*")&&u!==""&&r>0)break}r>0&&(s.push(...n.slice(0,r)),s.push(""));let o=[...t].sort((d,u)=>d.startLine-u.startLine),c=0,a=0;for(let d of o)if(d.isTarget){s.push(`// \u2501\u2501\u2501 REQUESTED: ${d.name} \u2501\u2501\u2501`);let u=n.slice(d.startLine-1,d.endLine);s.push(...u),s.push("// \u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501"),s.push(""),a++}else{let u=d.signature||Nc(n,d.startLine-1,d.kind);u&&(s.push(`${u}`),s.push(`  /* implementation: ${d.lineCount} lines */`),s.push(""),c++)}let l=o[o.length-1];if(l)for(let d=l.endLine;d<n.length;d++){let u=n[d].trim();if(u==="}"||u==="};"){s.push(n[d]);break}else if(u&&!u.startsWith("//"))break}return{foldedSource:s.join(`
-`),totalOriginalLines:n.length,foldedToLines:s.length,siblingsShown:a,siblingsFolded:c}}function Nc(i,e,t){let n=i[e];if(t.includes("Function")||t.includes("Method")||t.includes("Arrow")){let s="";for(let r=e;r<Math.min(e+5,i.length);r++)if(s+=i[r],s.includes("{")||s.includes("=>")){let o=s.indexOf("{");o>0&&(s=s.substring(0,o).trim());break}return s.trim()}return n}async function gt(i){let{repoPath:e,filePath:t,resolver:n}=Re(i),s=String(i.symbolName),r=i.context||"definition";if(t&&!n.isWithinRoot(t))return{content:[{type:"text",text:`Error: Access denied. Path ${t} is outside the repository root.`}],isError:!0};await z(e);let o=C.getInstance(e),c=[];if(s.includes(".")){let[T,v]=s.split(".");c=o.exports.findMemberCandidates(T,v,t)}else c=o.exports.findDefinitionCandidates(s,t);if(c.length===0){let T=o.exports.findPotentialParents(s);if(T.length>0){let x=T.map(I=>`\`${I.name}\` (in ${n.getRelative(I.file_path)})`).join(", ");return{content:[{type:"text",text:`Symbol "${s}" not found as a top-level export.
-However, it likely exists inside: ${x}.
-Try: shadow_inspect_symbol({ symbolName: "${T[0].name}", context: "full" }) to see the class body.`}]}}let k=o.exports.findFuzzyCandidates(s).map(x=>x.name),F=Ht(s,k,50,3);if(F.length>0){let x=F.map(I=>`  \u2022 \`${I.match}\` (${I.score}% match)`).join(`
+\u{1F4A1} Showing ${u} complete signatures. To inspect a specific symbol: shadow_inspect_symbol({ symbolName: "...", context: "full" })`),{content:[{type:"text",text:JSON.stringify({...l,fileDescription:o?.summary||"",classification:o?.classification||"Unknown"},null,2)+d}]}}z();import vo from"path";import ul from"fs";function ml(i,e,t){let n=i.split(`
+`),s=[],r=0;for(let u=0;u<Math.min(n.length,50);u++){let d=n[u].trim();if(d.startsWith("import ")||d.startsWith("from ")||d.startsWith("export ")&&d.includes(" from "))r=u+1;else if(d&&!d.startsWith("//")&&!d.startsWith("/*")&&!d.startsWith("*")&&d!==""&&r>0)break}r>0&&(s.push(...n.slice(0,r)),s.push(""));let o=[...t].sort((u,d)=>u.startLine-d.startLine),c=0,a=0;for(let u of o)if(u.isTarget){s.push(`// \u2501\u2501\u2501 REQUESTED: ${u.name} \u2501\u2501\u2501`);let d=n.slice(u.startLine-1,u.endLine);s.push(...d),s.push("// \u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501"),s.push(""),a++}else{let d=u.signature||hl(n,u.startLine-1,u.kind);d&&(s.push(`${d}`),s.push(`  /* implementation: ${u.lineCount} lines */`),s.push(""),c++)}let l=o[o.length-1];if(l)for(let u=l.endLine;u<n.length;u++){let d=n[u].trim();if(d==="}"||d==="};"){s.push(n[u]);break}else if(d&&!d.startsWith("//"))break}return{foldedSource:s.join(`
+`),totalOriginalLines:n.length,foldedToLines:s.length,siblingsShown:a,siblingsFolded:c}}function hl(i,e,t){let n=i[e];if(t.includes("Function")||t.includes("Method")||t.includes("Arrow")){let s="";for(let r=e;r<Math.min(e+5,i.length);r++)if(s+=i[r],s.includes("{")||s.includes("=>")){let o=s.indexOf("{");o>0&&(s=s.substring(0,o).trim());break}return s.trim()}return n}async function Lt(i){let{repoPath:e,filePath:t,resolver:n}=Me(i),s=String(i.symbolName),r=i.context||"definition";if(t&&!n.isWithinRoot(t))return{content:[{type:"text",text:`Error: Access denied. Path ${t} is outside the repository root.`}],isError:!0};await G(e);let o=C.getInstance(e),c=[];if(s.includes(".")){let[v,k]=s.split(".");c=o.exports.findMemberCandidates(v,k,t)}else c=o.exports.findDefinitionCandidates(s,t);if(c.length===0){let v=o.exports.findPotentialParents(s);if(v.length>0){let T=v.map(I=>`\`${I.name}\` (in ${n.getRelative(I.file_path)})`).join(", ");return{content:[{type:"text",text:`Symbol "${s}" not found as a top-level export.
+However, it likely exists inside: ${T}.
+Try: shadow_inspect_symbol({ symbolName: "${v[0].name}", context: "full" }) to see the class body.`}]}}let N=o.exports.findFuzzyCandidates(s).map(T=>T.name),O=en(s,N,50,3);if(O.length>0){let T=O.map(I=>`  \u2022 \`${I.match}\` (${I.score}% match)`).join(`
 `);return{content:[{type:"text",text:`Error: Symbol "${s}" not found in the index.
 
 Suggestions:
-${x}
+${T}
 
 Next steps:
   \u2022 Search semantically: shadow_search_concept({ query: "${s}" })
@@ -691,36 +719,36 @@ Next steps:
 Next steps:
   \u2022 Search for it: shadow_search_concept({ query: "${s}" })
   \u2022 Try with file path: shadow_inspect_symbol({ symbolName: "${s}", filePath: "..." })
-`}]}}let a=c[0];if(a.kind==="ExportSpecifier"||a.kind==="ExportAllDeclaration"){let T=o.imports.findImportSource(a.file_path,s);if(T&&T.resolved_path)return gt({...i,filePath:T.resolved_path})}let l=kc.readFileSync(a.file_path,"utf8"),p=l.split(`
-`),d=a.end_line-a.start_line+1,u=150,m,f=!1,h=null;if(r==="definition"&&d>u){let v=o.exports.findSiblings(a.file_path).map(k=>({name:k.name,kind:k.kind,signature:k.signature||"",startLine:k.start_line,endLine:k.end_line,lineCount:k.end_line-k.start_line+1,isTarget:k.name===a.name&&k.start_line===a.start_line,parentName:k.parent_name}));if(v.length>1){h=Lc(l,{name:a.name,startLine:a.start_line,endLine:a.end_line},v);let k=n.getRelative(a.file_path);m=h.foldedSource+`
+`}]}}let a=c[0];if(a.kind==="ExportSpecifier"||a.kind==="ExportAllDeclaration"){let v=o.imports.findImportSource(a.file_path,s);if(v&&v.resolved_path)return Lt({...i,filePath:v.resolved_path})}let l=ul.readFileSync(a.file_path,"utf8"),p=l.split(`
+`),u=a.end_line-a.start_line+1,d=150,m,h=!1,g=null;if(r==="definition"&&u>d){let k=o.exports.findSiblings(a.file_path).map(N=>({name:N.name,kind:N.kind,signature:N.signature||"",startLine:N.start_line,endLine:N.end_line,lineCount:N.end_line-N.start_line+1,isTarget:N.name===a.name&&N.start_line===a.start_line,parentName:N.parent_name}));if(k.length>1){g=ml(l,{name:a.name,startLine:a.start_line,endLine:a.end_line},k);let N=n.getRelative(a.file_path);m=g.foldedSource+`
 
 \u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501
 \u{1F4CA} Semantic Fold Applied (context: "definition")
 
-   Original file: ${h.totalOriginalLines} lines
-   Folded view: ${h.foldedToLines} lines
+   Original file: ${g.totalOriginalLines} lines
+   Folded view: ${g.foldedToLines} lines
 Target Symbol: ${a.name}
 \u{1F4A1} Need more context?
    \u2022 Full symbol + dependencies + usage: shadow_inspect_symbol({ symbolName: "${a.name}", context: "full" })
-   \u2022 ALL symbols in this file: shadow_inspect_file({ filePath: "${k}", detailLevel: "signatures" })
-\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501`,f=!0}else m=p.slice(a.start_line-1,a.start_line-1+u).join(`
+   \u2022 ALL symbols in this file: shadow_inspect_file({ filePath: "${N}", detailLevel: "signatures" })
+\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501\u2501`,h=!0}else m=p.slice(a.start_line-1,a.start_line-1+d).join(`
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-... (truncated ${d-u} lines)`,f=!0}else m=p.slice(a.start_line-1,a.end_line).join(`
-`);let b=a.parent_name?`${a.parent_name}.${a.name}`:a.name,y=o.exports.findHydratedById(a.id),g={name:b,kind:a.kind,file:n.getRelative(a.file_path),startLine:a.start_line,endLine:a.end_line,totalLines:d,...f&&{truncated:!0,previewLines:u},classification:a.classification,intelligence:y?{working_set_of:y.active_missions.map(T=>`Mission #${T.id}: ${T.name}`),total_intents:y.intent_log_count,latest_intent:y.recent_intents[0]?`${y.recent_intents[0].type}: ${y.recent_intents[0].content}`:null}:void 0,source:m};if(r==="definition")return{content:[{type:"text",text:JSON.stringify(g,null,2)}]};let S={definition:g,dependencies:o.imports.getImportsForFile(a.file_path).map(T=>({module:T.module_specifier,symbols:T.imported_symbols,relativePath:T.resolved_path?to.relative(e,T.resolved_path):null}))},R=[a.file_path],w=o.imports.findVerifiedDependents(R,s);return S.verifiedUsages=w.slice(0,10).map(T=>({file:to.relative(e,T.file_path),classification:T.classification,importedSymbols:T.imported_symbols})),{content:[{type:"text",text:JSON.stringify(S,null,2)}]}}async function no(i,e){let t=jt.resolve(e.dir);await B(async()=>{le("Semantic Concept Search");let n=de();n.start(`Analyzing intent: "${E.bold(i)}"...`);try{let s=await Kr({repoPath:t,query:i});n.stop("Analysis complete.");let r=s.content[0].text;if(r.includes("Found")){let c=r.split("## ").slice(1).map(a=>{let[l,...p]=a.split(`
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 `):"- None","","---",'**To install hooks**: Use `shadow_env_hooks({ action: "install" })`'].join(`
-`)}]}}return{content:[{type:"text",text:`Unknown action: ${t}`}],isError:!0}}async function oo(i){let[e,t="."]=i;if(!e||!["install","uninstall","status"].includes(e)){console.log(""),console.log(`  ${E.bold("Usage: ")} liquid-shadow hooks <install|uninstall|status> [path]`),console.log(""),console.log(`  ${E.bold("Commands: ")}`),console.log(`    ${E.cyan("install")}    Install git hooks for automatic index refresh and symbol healing`),console.log(`    ${E.cyan("uninstall")}  Remove installed git hooks`),console.log(`    ${E.cyan("status")}     Check git hooks installation status`),console.log(""),console.log(`  ${E.bold("Examples: ")}`),console.log("    liquid-shadow hooks install ."),console.log("    liquid-shadow hooks status /path/to/repo"),console.log("");return}await B(async()=>{let n=Go("path").resolve(t);switch(e){case"install":{let s=await Pn({repoPath:n,action:"install",enableAutoRefresh:!0,enableSymbolHealing:!0});if(console.log(""),console.log(`  ${E.green("\u2714")} ${E.bold("Git hooks installed successfully")}`),console.log(""),s.content&&s.content[0])try{let r=JSON.parse(s.content[0].text);console.log(`  ${E.bold("Installed hooks: ")}`),r.hooks.forEach(o=>{console.log(`    ${E.cyan("\u2022")} ${o}`)}),console.log("")}catch{console.log(s.content[0].text)}break}case"uninstall":{await Pn({repoPath:n,action:"remove"}),console.log(""),console.log(`  ${E.green("\u2714")} ${E.bold("Git hooks uninstalled successfully")}`),console.log("");break}case"status":{let s=await Pn({repoPath:n,action:"status"});if(console.log(""),console.log(`  ${E.bold("Git Hooks Status")}`),console.log(""),s.content&&s.content[0])try{let r=JSON.parse(s.content[0].text);r.installed&&r.installed.length>0?(console.log(`  ${E.green("\u2714")} Installed hooks:`),r.installed.forEach(o=>{console.log(`    ${E.cyan("\u2022")} ${o}`)})):console.log(`  ${E.yellow("\u26A0")} No hooks installed`),r.missing&&r.missing.length>0&&(console.log(""),console.log(`  ${E.dim("Missing hooks: ")}`),r.missing.forEach(o=>{console.log(`    ${E.dim("\u2022")} ${o}`)}))}catch{console.log(s.content[0].text)}console.log("");break}}})}U();P();import Ac from"path";import Mc from"fs";var ao=_.child({module:"mcp:tools:workspace:list"});async function co(i){let{repoPaths:e,status:t,limit:n,summarize:s=!1}=i;ao.info({repoCount:e.length,status:t,summarize:s},"Getting workspace missions");let r=[];for(let c of e)if(Mc.existsSync(c))try{let{missions:a}=C.getInstance(c),l=a.findAll(t);for(let p of l){let d=a.getLinks(p.id);r.push({...p,repo_path:c,repo_name:Ac.basename(c),cross_repo_links:d})}}catch(a){ao.error({error:a,repoPath:c},"Failed to query repo missions")}if(r.sort((c,a)=>{let l=u=>u==="in-progress"?0:u==="verifying"?1:2,p=l(c.status),d=l(a.status);return p!==d?p-d:(c.created_at||0)-(a.created_at||0)}),s||r.length>50&&!n){let c=n||20,a=r.slice(0,c),l=r.reduce((d,u)=>(d[u.status]=(d[u.status]||0)+1,d),{}),p=r.reduce((d,u)=>(d[u.repo_name]=(d[u.repo_name]||0)+1,d),{});return{content:[{type:"text",text:JSON.stringify({summary:{total_missions:r.length,by_status:l,by_repo:p,showing_top:c},top_missions:a,hint:`Showing top ${c} of ${r.length} missions. Use limit to adjust or summarize:false for full list.`},null,2)}]}}let o=n?r.slice(0,n):r;return{content:[{type:"text",text:JSON.stringify({total_missions:r.length,showing:o.length,missions:o},null,2)}]}}U();P();var Pc=_.child({module:"mcp:tools:workspace:link"});async function lo(i){let{parentRepoPath:e,parentMissionId:t,childRepoPath:n,childMissionId:s,relationship:r="related"}=i;Pc.info({parentRepoPath:e,childRepoPath:n},"Linking cross-repo missions");let{missions:o}=C.getInstance(e),{missions:c}=C.getInstance(n);try{let a=o.findById(t),l=c.findById(s);if(!a)throw new Error(`Parent mission ${t} not found`);if(!l)throw new Error(`Child mission ${s} not found`);return o.createLink(t,n,s,r,"parent"),c.createLink(s,e,t,r,"child"),{content:[{type:"text",text:JSON.stringify({status:"linked",relationship:r},null,2)}]}}catch(a){throw new Error(`Failed to link: ${a.message}`)}}P();import Gc from"path";P();Qe();import Dc from"better-sqlite3";import yt from"path";import po from"fs";import Oc from"os";import Fc from"crypto";var Hc=_.child({module:"fusion-connection"}),Dn=5,Wc=1,uo=["files","exports","imports","configs","schema_migrations"],On=class{fusionDb;attachedRepos=new Map;fusionDbPath;name;constructor(e){this.name=e.name,this.fusionDbPath=this.getFusionDbPath(e.name),Hc.info({name:e.name,path:this.fusionDbPath},"Initializing fused index connection");let t=yt.dirname(this.fusionDbPath);po.existsSync(t)||po.mkdirSync(t,{recursive:!0}),this.fusionDb=new Dc(this.fusionDbPath),this.fusionDb.pragma("journal_mode = WAL"),this.fusionDb.pragma("busy_timeout = 5000"),this.initFusionSchema();for(let n of e.repoPaths)this.attachRepo(n)}getFusionDbPath(e){let t=Oc.homedir(),n=yt.join(t,".mcp-liquid-shadow","fused"),s=e.replace(/[^a-zA-Z0-9-_]/g,"_");return yt.join(n,`${s}.db`)}initFusionSchema(){this.fusionDb.exec(`
+`)}]}}return{content:[{type:"text",text:`Unknown action: ${t}`}],isError:!0}}async function Co(i){let[e,t="."]=i;if(!e||!["install","uninstall","status"].includes(e)){console.log(""),console.log(`  ${f.bold("Usage: ")} liquid-shadow hooks <install|uninstall|status> [path]`),console.log(""),console.log(`  ${f.bold("Commands: ")}`),console.log(`    ${f.cyan("install")}    Install git hooks for automatic index refresh and symbol healing`),console.log(`    ${f.cyan("uninstall")}  Remove installed git hooks`),console.log(`    ${f.cyan("status")}     Check git hooks installation status`),console.log(""),console.log(`  ${f.bold("Examples: ")}`),console.log("    liquid-shadow hooks install ."),console.log("    liquid-shadow hooks status /path/to/repo"),console.log("");return}await B(async()=>{let n=fa("path").resolve(t);switch(e){case"install":{let s=await Kn({repoPath:n,action:"install",enableAutoRefresh:!0,enableSymbolHealing:!0});if(console.log(""),console.log(`  ${f.green("\u2714")} ${f.bold("Git hooks installed successfully")}`),console.log(""),s.content&&s.content[0])try{let r=JSON.parse(s.content[0].text);console.log(`  ${f.bold("Installed hooks: ")}`),r.hooks.forEach(o=>{console.log(`    ${f.cyan("\u2022")} ${o}`)}),console.log("")}catch{console.log(s.content[0].text)}break}case"uninstall":{await Kn({repoPath:n,action:"remove"}),console.log(""),console.log(`  ${f.green("\u2714")} ${f.bold("Git hooks uninstalled successfully")}`),console.log("");break}case"status":{let s=await Kn({repoPath:n,action:"status"});if(console.log(""),console.log(`  ${f.bold("Git Hooks Status")}`),console.log(""),s.content&&s.content[0])try{let r=JSON.parse(s.content[0].text);r.installed&&r.installed.length>0?(console.log(`  ${f.green("\u2714")} Installed hooks:`),r.installed.forEach(o=>{console.log(`    ${f.cyan("\u2022")} ${o}`)})):console.log(`  ${f.yellow("\u26A0")} No hooks installed`),r.missing&&r.missing.length>0&&(console.log(""),console.log(`  ${f.dim("Missing hooks: ")}`),r.missing.forEach(o=>{console.log(`    ${f.dim("\u2022")} ${o}`)}))}catch{console.log(s.content[0].text)}console.log("");break}}})}z();W();import fl from"path";import gl from"fs";var Lo=S.child({module:"mcp:tools:workspace:list"});async function $o(i){let{repoPaths:e,status:t,limit:n,summarize:s=!1}=i;Lo.info({repoCount:e.length,status:t,summarize:s},"Getting workspace missions");let r=[];for(let c of e)if(gl.existsSync(c))try{let{missions:a}=C.getInstance(c),l=a.findAll(t);for(let p of l){let u=a.getLinks(p.id);r.push({...p,repo_path:c,repo_name:fl.basename(c),cross_repo_links:u})}}catch(a){Lo.error({error:a,repoPath:c},"Failed to query repo missions")}if(r.sort((c,a)=>{let l=d=>d==="in-progress"?0:d==="verifying"?1:2,p=l(c.status),u=l(a.status);return p!==u?p-u:(c.created_at||0)-(a.created_at||0)}),s||r.length>50&&!n){let c=n||20,a=r.slice(0,c),l=r.reduce((u,d)=>(u[d.status]=(u[d.status]||0)+1,u),{}),p=r.reduce((u,d)=>(u[d.repo_name]=(u[d.repo_name]||0)+1,u),{});return{content:[{type:"text",text:JSON.stringify({summary:{total_missions:r.length,by_status:l,by_repo:p,showing_top:c},top_missions:a,hint:`Showing top ${c} of ${r.length} missions. Use limit to adjust or summarize:false for full list.`},null,2)}]}}let o=n?r.slice(0,n):r;return{content:[{type:"text",text:JSON.stringify({total_missions:r.length,showing:o.length,missions:o},null,2)}]}}z();W();var yl=S.child({module:"mcp:tools:workspace:link"});async function No(i){let{parentRepoPath:e,parentMissionId:t,childRepoPath:n,childMissionId:s,relationship:r="related"}=i;yl.info({parentRepoPath:e,childRepoPath:n},"Linking cross-repo missions");let{missions:o}=C.getInstance(e),{missions:c}=C.getInstance(n);try{let a=o.findById(t),l=c.findById(s);if(!a)throw new Error(`Parent mission ${t} not found`);if(!l)throw new Error(`Child mission ${s} not found`);return o.createLink(t,n,s,r,"parent"),c.createLink(s,e,t,r,"child"),{content:[{type:"text",text:JSON.stringify({status:"linked",relationship:r},null,2)}]}}catch(a){throw new Error(`Failed to link: ${a.message}`)}}W();import kl from"path";W();qe();import bl from"better-sqlite3";import $t from"path";import Ao from"fs";import _l from"os";import El from"crypto";var Sl=S.child({module:"fusion-connection"}),Xn=5,wl=1,Po=["files","exports","imports","configs","schema_migrations"],Zn=class{fusionDb;attachedRepos=new Map;fusionDbPath;name;constructor(e){this.name=e.name,this.fusionDbPath=this.getFusionDbPath(e.name),Sl.info({name:e.name,path:this.fusionDbPath},"Initializing fused index connection");let t=$t.dirname(this.fusionDbPath);Ao.existsSync(t)||Ao.mkdirSync(t,{recursive:!0}),this.fusionDb=new bl(this.fusionDbPath),this.fusionDb.pragma("journal_mode = WAL"),this.fusionDb.pragma("busy_timeout = 5000"),this.initFusionSchema();for(let n of e.repoPaths)this.attachRepo(n)}getFusionDbPath(e){let t=_l.homedir(),n=$t.join(t,".mcp-liquid-shadow","fused"),s=e.replace(/[^a-zA-Z0-9-_]/g,"_");return $t.join(n,`${s}.db`)}initFusionSchema(){this.fusionDb.exec(`
       CREATE TABLE IF NOT EXISTS fused_repos (
         alias TEXT PRIMARY KEY,
         repo_path TEXT NOT NULL UNIQUE,
@@ -754,19 +782,19 @@ Target Symbol: ${a.name}
 
       CREATE INDEX IF NOT EXISTS idx_virtual_edges_source ON virtual_edges(source_repo, source_file_path);
       CREATE INDEX IF NOT EXISTS idx_virtual_edges_target ON virtual_edges(target_repo, target_file_path);
-    `),this.fusionDb.prepare("INSERT OR REPLACE INTO fused_metadata (key, value, updated_at) VALUES ('schema_version', ?, unixepoch())").run(Wc.toString())}attachRepo(e){let t=yt.resolve(e);if(this.attachedRepos.has(t))return;if(!Ve(t))throw new Error(`Repository "${t}" is not indexed. Run shadow_recon_onboard({ repoPath: "${t}" }) then shadow_sync_trace({ repoPath: "${t}" }).`);let n=ke(t),s=n.name;this.validateSchemaCompatibility(n,t);let r=this.getSchemaVersion(n),o=this.generateAlias(t),c=3,a=100;for(let l=1;l<=c;l++)try{this.fusionDb.exec(`ATTACH DATABASE '${s}' AS ${o}`);let p={alias:o,repoPath:t,dbPath:s,schemaVersion:r,attached:!0};this.attachedRepos.set(t,p),this.fusionDb.prepare(`INSERT OR REPLACE INTO fused_repos (alias, repo_path, db_path, schema_version, attached_at, last_validated_at)
-             VALUES (?, ?, ?, ?, unixepoch(), unixepoch())`).run(o,t,s,r);return}catch(p){let d=p instanceof Error?p.message.toLowerCase():String(p).toLowerCase();if((d.includes("locked")||d.includes("busy"))&&l<c){this.sleep(a*l);continue}throw p}}checkHealth(){let e=[];for(let t of this.attachedRepos.values())try{this.fusionDb.prepare(`SELECT 1 FROM ${t.alias}.files LIMIT 1`).get(),e.push({alias:t.alias,repoPath:t.repoPath,accessible:!0})}catch(n){e.push({alias:t.alias,repoPath:t.repoPath,accessible:!1,error:n instanceof Error?n.message:String(n)})}return{healthy:e.every(t=>t.accessible),repos:e}}detachRepo(e){let t=yt.resolve(e),n=this.attachedRepos.get(t);n&&(this.fusionDb.exec(`DETACH DATABASE ${n.alias}`),this.attachedRepos.delete(t),this.fusionDb.prepare("DELETE FROM fused_repos WHERE repo_path = ?").run(t))}refreshRepo(e){this.detachRepo(e),this.attachRepo(e)}refreshAll(){let e=Array.from(this.attachedRepos.keys());for(let t of e)this.refreshRepo(t)}validateSchemas(){let e=Array.from(this.attachedRepos.values()).map(t=>{let n=ke(t.repoPath),s=uo.filter(o=>!this.checkTableExists(n,o)),r=this.getSchemaVersion(n);return{alias:t.alias,repoPath:t.repoPath,schemaVersion:r,compatible:r>=Dn&&s.length===0,missingTables:s}});return{valid:e.every(t=>t.compatible),minVersion:Dn,repos:e}}getAttachedRepos(){return Array.from(this.attachedRepos.values())}prepare(e){return this.fusionDb.prepare(e)}exec(e){this.fusionDb.exec(e)}close(){for(let e of this.attachedRepos.values())try{this.fusionDb.exec(`DETACH DATABASE ${e.alias}`)}catch{}this.attachedRepos.clear(),this.fusionDb.open&&this.fusionDb.close()}generateAlias(e){let t=yt.basename(e).replace(/[^a-zA-Z0-9]/g,"_").toLowerCase(),n=Fc.createHash("sha256").update(e).digest("hex").substring(0,6);return`repo_${t}_${n}`}getSchemaVersion(e){try{return e.prepare("SELECT MAX(version) as version FROM schema_migrations").get()?.version||0}catch{return 0}}validateSchemaCompatibility(e,t){let n=this.getSchemaVersion(e);if(n<Dn)throw new Error(`Schema version mismatch for ${t}. Expected >= ${Dn}, got ${n}.`);let s=uo.filter(r=>!this.checkTableExists(e,r));if(s.length>0)throw new Error(`Missing tables in ${t}: ${s.join(", ")}`)}checkTableExists(e,t){try{return!!e.prepare("SELECT name FROM sqlite_master WHERE type='table' AND name=?").get(t)}catch{return!1}}sleep(e){let t=Date.now()+e;for(;Date.now()<t;);}get nameValue(){return this.name}get dbPath(){return this.fusionDbPath}};P();var ze=_.child({module:"edge-scanner"});function $s(i){let e=i.split("?")[0].split("#")[0];return e.length>1&&e.endsWith("/")&&(e=e.slice(0,-1)),e}function jc(i){if(!i)return null;try{let e=JSON.parse(i);return e.path||e.name||null}catch{return null}}function Uc(i,e){let t=$s(i),n=$s(e);if(t===n)return!0;let s=n.replace(/:[^/]+/g,"[^/]+").replace(/\{[^}]+\}/g,"[^/]+").replace(/\$[^/]+/g,"[^/]+");return new RegExp(`^${s}$`).test(t)}function Bc(i){ze.info("Starting HTTP gap detection scan");let e=i.getAttachedRepos();if(e.length<2)return ze.warn("Need at least 2 repos for cross-repo dependency detection"),0;let t=[];for(let r of e)try{let o=`
+    `),this.fusionDb.prepare("INSERT OR REPLACE INTO fused_metadata (key, value, updated_at) VALUES ('schema_version', ?, unixepoch())").run(wl.toString())}attachRepo(e){let t=$t.resolve(e);if(this.attachedRepos.has(t))return;if(!He(t))throw new Error(`Repository "${t}" is not indexed. Run shadow_recon_onboard({ repoPath: "${t}" }) then shadow_sync_trace({ repoPath: "${t}" }).`);let n=We(t),s=n.name;this.validateSchemaCompatibility(n,t);let r=this.getSchemaVersion(n),o=this.generateAlias(t),c=3,a=100;for(let l=1;l<=c;l++)try{this.fusionDb.exec(`ATTACH DATABASE '${s}' AS ${o}`);let p={alias:o,repoPath:t,dbPath:s,schemaVersion:r,attached:!0};this.attachedRepos.set(t,p),this.fusionDb.prepare(`INSERT OR REPLACE INTO fused_repos (alias, repo_path, db_path, schema_version, attached_at, last_validated_at)
+             VALUES (?, ?, ?, ?, unixepoch(), unixepoch())`).run(o,t,s,r);return}catch(p){let u=p instanceof Error?p.message.toLowerCase():String(p).toLowerCase();if((u.includes("locked")||u.includes("busy"))&&l<c){this.sleep(a*l);continue}throw p}}checkHealth(){let e=[];for(let t of this.attachedRepos.values())try{this.fusionDb.prepare(`SELECT 1 FROM ${t.alias}.files LIMIT 1`).get(),e.push({alias:t.alias,repoPath:t.repoPath,accessible:!0})}catch(n){e.push({alias:t.alias,repoPath:t.repoPath,accessible:!1,error:n instanceof Error?n.message:String(n)})}return{healthy:e.every(t=>t.accessible),repos:e}}detachRepo(e){let t=$t.resolve(e),n=this.attachedRepos.get(t);n&&(this.fusionDb.exec(`DETACH DATABASE ${n.alias}`),this.attachedRepos.delete(t),this.fusionDb.prepare("DELETE FROM fused_repos WHERE repo_path = ?").run(t))}refreshRepo(e){this.detachRepo(e),this.attachRepo(e)}refreshAll(){let e=Array.from(this.attachedRepos.keys());for(let t of e)this.refreshRepo(t)}validateSchemas(){let e=Array.from(this.attachedRepos.values()).map(t=>{let n=We(t.repoPath),s=Po.filter(o=>!this.checkTableExists(n,o)),r=this.getSchemaVersion(n);return{alias:t.alias,repoPath:t.repoPath,schemaVersion:r,compatible:r>=Xn&&s.length===0,missingTables:s}});return{valid:e.every(t=>t.compatible),minVersion:Xn,repos:e}}getAttachedRepos(){return Array.from(this.attachedRepos.values())}prepare(e){return this.fusionDb.prepare(e)}exec(e){this.fusionDb.exec(e)}close(){for(let e of this.attachedRepos.values())try{this.fusionDb.exec(`DETACH DATABASE ${e.alias}`)}catch{}this.attachedRepos.clear(),this.fusionDb.open&&this.fusionDb.close()}generateAlias(e){let t=$t.basename(e).replace(/[^a-zA-Z0-9]/g,"_").toLowerCase(),n=El.createHash("sha256").update(e).digest("hex").substring(0,6);return`repo_${t}_${n}`}getSchemaVersion(e){try{return e.prepare("SELECT MAX(version) as version FROM schema_migrations").get()?.version||0}catch{return 0}}validateSchemaCompatibility(e,t){let n=this.getSchemaVersion(e);if(n<Xn)throw new Error(`Schema version mismatch for ${t}. Expected >= ${Xn}, got ${n}.`);let s=Po.filter(r=>!this.checkTableExists(e,r));if(s.length>0)throw new Error(`Missing tables in ${t}: ${s.join(", ")}`)}checkTableExists(e,t){try{return!!e.prepare("SELECT name FROM sqlite_master WHERE type='table' AND name=?").get(t)}catch{return!1}}sleep(e){let t=Date.now()+e;for(;Date.now()<t;);}get nameValue(){return this.name}get dbPath(){return this.fusionDbPath}};W();var nt=S.child({module:"edge-scanner"});function qs(i){let e=i.split("?")[0].split("#")[0];return e.length>1&&e.endsWith("/")&&(e=e.slice(0,-1)),e}function xl(i){if(!i)return null;try{let e=JSON.parse(i);return e.path||e.name||null}catch{return null}}function vl(i,e){let t=qs(i),n=qs(e);if(t===n)return!0;let s=n.replace(/:[^/]+/g,"[^/]+").replace(/\{[^}]+\}/g,"[^/]+").replace(/\$[^/]+/g,"[^/]+");return new RegExp(`^${s}$`).test(t)}function Tl(i){nt.info("Starting HTTP gap detection scan");let e=i.getAttachedRepos();if(e.length<2)return nt.warn("Need at least 2 repos for cross-repo dependency detection"),0;let t=[];for(let r of e)try{let o=`
         SELECT id, name, file_path, capabilities
         FROM ${r.alias}.exports
         WHERE kind = 'HTTP Route'
-      `,c=i.executeRawQuery(o);for(let a of c){let l=jc(a.capabilities)||a.name;l&&l.startsWith("/")&&t.push({repo:r.alias,repoPath:r.repoPath,filePath:a.file_path,symbolId:a.id,routePath:l})}}catch(o){ze.warn({repo:r.alias,error:o},"Failed to query backend routes")}ze.debug({count:t.length},"Found backend routes");let n=[];for(let r of e)try{let o=`
+      `,c=i.executeRawQuery(o);for(let a of c){let l=xl(a.capabilities)||a.name;l&&l.startsWith("/")&&t.push({repo:r.alias,repoPath:r.repoPath,filePath:a.file_path,symbolId:a.id,routePath:l})}}catch(o){nt.warn({repo:r.alias,error:o},"Failed to query backend routes")}nt.debug({count:t.length},"Found backend routes");let n=[];for(let r of e)try{let o=`
         SELECT file_path, name
         FROM ${r.alias}.event_synapses
         WHERE type = 'api_route' AND direction = 'produce'
-      `,c=i.executeRawQuery(o);for(let a of c){let l=$s(a.name);l&&l.startsWith("/")&&n.push({repo:r.alias,repoPath:r.repoPath,filePath:a.file_path,routePath:l})}}catch(o){ze.warn({repo:r.alias,error:o},"Failed to query frontend API calls")}ze.debug({count:n.length},"Found frontend API calls");let s=0;for(let r of n)for(let o of t)if(r.repoPath!==o.repoPath&&Uc(r.routePath,o.routePath))try{i.addVirtualEdge({sourceRepo:r.repoPath,sourceFilePath:r.filePath,targetRepo:o.repoPath,targetFilePath:o.filePath,targetSymbolId:o.symbolId,relationship:"api_call",metadata:{frontendPath:r.routePath,backendPath:o.routePath,method:o.method},confidence:1}),s++}catch(c){ze.debug({source:r.filePath,target:o.filePath,error:c},"Skipped duplicate edge")}return ze.info({edgesCreated:s,backendRoutes:t.length,frontendCalls:n.length},"HTTP gap detection scan completed"),s}function mo(i){let e=Bc(i);return{httpGaps:e,totalEdges:e}}P();var zc=_.child({module:"fusion-index-service"}),Fn=class{constructor(e){this.connection=e}executeFederatedQuery(e,...t){return this.connection.prepare(e).all(...t).map(r=>{let{_repo_alias:o,_repo_path:c,...a}=r;return{repo:o,repoPath:c,data:a}})}executeRawQuery(e,...t){return this.connection.prepare(e).all(...t)}buildAdvancedQuery(e){let t=this.connection.getAttachedRepos();if(t.length===0)throw new Error("No repositories attached");let{table:n,tableAlias:s,columns:r,joins:o,where:c,groupBy:a,having:l,orderBy:p,limit:d,offset:u}=e,m=s||n.charAt(0),f=r.join(", "),b=t.map(y=>{let g=`${y.alias}.${n} ${m}`,S="";o&&o.length>0&&(S=o.map(v=>{let k=v.alias||v.table.charAt(0);return`${v.type} JOIN ${y.alias}.${v.table} ${k} ON ${v.on}`}).join(`
-  `));let R=c?`WHERE ${c}`:"",w=a&&a.length>0?`GROUP BY ${a.join(", ")}`:"",T=l?`HAVING ${l}`:"";return`SELECT '${y.alias}' as _repo_alias, '${y.repoPath}' as _repo_path, ${f} FROM ${g} ${S} ${R} ${w} ${T}`.trim()}).join(`
+      `,c=i.executeRawQuery(o);for(let a of c){let l=qs(a.name);l&&l.startsWith("/")&&n.push({repo:r.alias,repoPath:r.repoPath,filePath:a.file_path,routePath:l})}}catch(o){nt.warn({repo:r.alias,error:o},"Failed to query frontend API calls")}nt.debug({count:n.length},"Found frontend API calls");let s=0;for(let r of n)for(let o of t)if(r.repoPath!==o.repoPath&&vl(r.routePath,o.routePath))try{i.addVirtualEdge({sourceRepo:r.repoPath,sourceFilePath:r.filePath,targetRepo:o.repoPath,targetFilePath:o.filePath,targetSymbolId:o.symbolId,relationship:"api_call",metadata:{frontendPath:r.routePath,backendPath:o.routePath,method:o.method},confidence:1}),s++}catch(c){nt.debug({source:r.filePath,target:o.filePath,error:c},"Skipped duplicate edge")}return nt.info({edgesCreated:s,backendRoutes:t.length,frontendCalls:n.length},"HTTP gap detection scan completed"),s}function Mo(i){let e=Tl(i);return{httpGaps:e,totalEdges:e}}W();var Rl=S.child({module:"fusion-index-service"}),es=class{constructor(e){this.connection=e}executeFederatedQuery(e,...t){return this.connection.prepare(e).all(...t).map(r=>{let{_repo_alias:o,_repo_path:c,...a}=r;return{repo:o,repoPath:c,data:a}})}executeRawQuery(e,...t){return this.connection.prepare(e).all(...t)}buildAdvancedQuery(e){let t=this.connection.getAttachedRepos();if(t.length===0)throw new Error("No repositories attached");let{table:n,tableAlias:s,columns:r,joins:o,where:c,groupBy:a,having:l,orderBy:p,limit:u,offset:d}=e,m=s||n.charAt(0),h=r.join(", "),_=t.map(b=>{let y=`${b.alias}.${n} ${m}`,E="";o&&o.length>0&&(E=o.map(k=>{let N=k.alias||k.table.charAt(0);return`${k.type} JOIN ${b.alias}.${k.table} ${N} ON ${k.on}`}).join(`
+  `));let w=c?`WHERE ${c}`:"",x=a&&a.length>0?`GROUP BY ${a.join(", ")}`:"",v=l?`HAVING ${l}`:"";return`SELECT '${b.alias}' as _repo_alias, '${b.repoPath}' as _repo_path, ${h} FROM ${y} ${E} ${w} ${x} ${v}`.trim()}).join(`
  UNION ALL 
-`);return p&&(b=`SELECT * FROM (${b}) AS federated_results ORDER BY ${p}`),d!==void 0&&(b+=` LIMIT ${d}`),u!==void 0&&(b+=` OFFSET ${u}`),b}buildFtsQuery(e,t,n,s,r=50){let o=this.connection.getAttachedRepos();if(o.length===0)throw new Error("No repositories attached");let c=n.replace(/"/g,'""'),a=s.map(p=>`c.${p}`).join(", ");return`${o.map(p=>`
+`);return p&&(_=`SELECT * FROM (${_}) AS federated_results ORDER BY ${p}`),u!==void 0&&(_+=` LIMIT ${u}`),d!==void 0&&(_+=` OFFSET ${d}`),_}buildFtsQuery(e,t,n,s,r=50){let o=this.connection.getAttachedRepos();if(o.length===0)throw new Error("No repositories attached");let c=n.replace(/"/g,'""'),a=s.map(p=>`c.${p}`).join(", ");return`${o.map(p=>`
 SELECT '${p.alias}' as _repo_alias, '${p.repoPath}' as _repo_path, ${a}, bm25(${p.alias}.${e}) as _fts_rank
 FROM ${p.alias}.${e} fts
 JOIN ${p.alias}.${t} c ON fts.rowid = c.id
@@ -788,7 +816,7 @@ WHERE i.resolved_path IS NOT NULL`);return t.join(`
       INSERT INTO virtual_edges
       (source_repo, source_file_path, source_symbol_id, target_repo, target_file_path, target_symbol_id, relationship, metadata, confidence, updated_at)
       VALUES (?, ?, ?, ?, ?, ?, ?, ?, ?, unixepoch())
-    `).run(e.sourceRepo,e.sourceFilePath,e.sourceSymbolId||null,e.targetRepo,e.targetFilePath,e.targetSymbolId||null,e.relationship,e.metadata?JSON.stringify(e.metadata):null,e.confidence??1).lastInsertRowid}scanEdges(){return zc.info({name:this.connection.nameValue},"Starting edge scan"),mo(this)}getAttachedRepos(){return this.connection.getAttachedRepos()}get name(){return this.connection.nameValue}};var ho=_.child({module:"fused-index"}),Ls=class{connection;service;configName;constructor(e){this.configName=e.name,this.connection=new On(e),this.service=new Fn(this.connection)}attachRepo(e){this.connection.attachRepo(e)}detachRepo(e){this.connection.detachRepo(e)}refreshRepo(e){this.connection.refreshRepo(e)}getAttachedRepos(){return this.connection.getAttachedRepos()}checkHealth(){return this.connection.checkHealth()}close(){this.connection.close(),ho.info({name:this.configName},"Fused index closed")}getStatus(){let e=this.service.executeRawQuery("SELECT COUNT(*) as count FROM virtual_edges");return{name:this.connection.nameValue,path:this.connection.dbPath,attachedRepos:this.connection.getAttachedRepos().length,repos:this.connection.getAttachedRepos(),virtualEdgesCount:e[0]?.count||0}}searchExports(e,t=50){return this.service.searchExports(e,t)}searchFiles(e,t=50){return this.service.searchFiles(e,t)}getVirtualEdges(e,t){return this.service.getVirtualEdges(e,t)}addVirtualEdge(e){return this.service.addVirtualEdge(e)}scanEdges(){return this.service.scanEdges()}buildUnionQuery(e,t,n){return this.service.buildUnionQuery(e,t,n)}executeFederatedQuery(e,...t){return this.service.executeFederatedQuery(e,...t)}executeRawQuery(e,...t){return this.service.executeRawQuery(e,...t)}buildAdvancedQuery(e){return this.service.buildAdvancedQuery(e)}buildFtsQuery(e,t,n,s,r){return this.service.buildFtsQuery(e,t,n,s,r)}buildCrossRepoImportsQuery(){return this.service.buildCrossRepoImportsQuery()}refreshAll(){this.connection.refreshAll()}validateSchemas(){return ho.debug({name:this.configName},"Delegating validateSchemas"),this.connection.validateSchemas()}},ks=new Map;function fo(i){let e=ks.get(i.name);if(e){let n=new Set(e.getAttachedRepos().map(o=>o.repoPath)),s=new Set(i.repoPaths.map(o=>Gc.resolve(o)));if(n.size===s.size&&[...n].every(o=>s.has(o)))return e;e.close(),ks.delete(i.name)}let t=new Ls(i);return ks.set(i.name,t),t}P();var qc=_.child({module:"mcp:tools:workspace:fuse"});async function go(i){let{repoPaths:e,name:t}=i;qc.info({repoCount:e.length,name:t},"Creating fused workspace index");try{let n=fo({repoPaths:e,name:t||`workspace-${Date.now()}`});return{content:[{type:"text",text:JSON.stringify({message:"Fused index created",status:n.getStatus()},null,2)}]}}catch(n){throw new Error(`Failed to fuse: ${n.message}`)}}import Hn from"path";async function yo(i){let[e,...t]=i;if(!e||!["missions","link","fuse"].includes(e)){console.log(""),console.log(`  ${E.bold("Usage: ")} liquid-shadow workspace <missions|link> [options]`),console.log(""),console.log(`  ${E.bold("Commands: ")}`),console.log(`    ${E.cyan("missions")} <paths...>  Get unified view of missions across repositories`),console.log(`    ${E.cyan("link")} <args...>       Link missions across repositories`),console.log(`    ${E.cyan("fuse")} <paths...>       Create fused index for cross-repo search (use --name for custom name)`),console.log(""),console.log(`  ${E.bold("Examples: ")}`),console.log("    liquid-shadow workspace missions /frontend /backend"),console.log("    liquid-shadow workspace link /frontend 5 /backend 12"),console.log("    liquid-shadow workspace fuse /frontend /backend --name my-app"),console.log("");return}await B(async()=>{switch(e){case"missions":{if(t.length===0){console.error(`  ${E.red("\u2716")} Please provide at least one repository path`);return}let n=t.map(r=>Hn.resolve(r)),s=await co({repoPaths:n});if(console.log(""),console.log(`  ${E.bold("Workspace Missions")}`),console.log(""),s.content&&s.content[0]){let r=JSON.parse(s.content[0].text);r.missions&&r.missions.length>0?r.missions.forEach(o=>{console.log(`  ${E.cyan("\u2022")} ${E.bold(o.name)} (ID: ${o.id})`),console.log(`    ${E.dim("Repo: ")} ${o.repo_path}`),console.log(`    ${E.dim("Status: ")} ${o.status}`),console.log(`    ${E.dim("Branch: ")} ${o.git_branch||"N/A"}`),o.cross_repo_links&&o.cross_repo_links.length>0&&console.log(`    ${E.dim("Links: ")} ${o.cross_repo_links.length} cross-repo link(s)`),console.log("")}):(console.log(`  ${E.yellow("\u26A0")} No missions found`),console.log(""))}break}case"link":{if(t.length<4){console.error(""),console.error(`  ${E.red("\u2716")} Usage: workspace link <parent-repo> <parent-id> <child-repo> <child-id> [relationship]`),console.error("");return}let[n,s,r,o,c]=t;await lo({parentRepoPath:Hn.resolve(n),parentMissionId:parseInt(s,10),childRepoPath:Hn.resolve(r),childMissionId:parseInt(o,10),relationship:c}),console.log(""),console.log(`  ${E.green("\u2714")} ${E.bold("Missions linked successfully")}`),console.log(`    ${E.dim("Parent: ")} ${n} (Mission ${s})`),console.log(`    ${E.dim("Child: ")} ${r} (Mission ${o})`),c&&console.log(`    ${E.dim("Relationship: ")} ${c}`),console.log("");break}case"fuse":{if(t.length===0){console.error(`  ${E.red("\u2716")} Please provide at least one repository path`);return}let n,s=[];for(let o=0;o<t.length;o++)t[o]==="--name"&&o+1<t.length?(n=t[o+1],o++):s.push(Hn.resolve(t[o]));let r=await go({repoPaths:s,name:n});if(console.log(""),console.log(`  ${E.green("\u2714")} ${E.bold("Fused Index Created")}`),r.content&&r.content[0]){let o=JSON.parse(r.content[0].text);console.log(`    ${E.dim("Name: ")} ${o.fused_index.name}`),console.log(`    ${E.dim("Path: ")} ${o.fused_index.path}`),console.log(`    ${E.dim("Repos: ")} ${o.fused_index.attachedRepos}`),console.log(""),console.log(`  ${E.bold("Instructions:")}`),console.log(`    ${o.instructions}`)}console.log("");break}}})}P();P();var Jc=_.child({module:"strategy-normalizer"}),Ne=class{static normalize(e){if(!e)return{steps:[]};let t;if(typeof e=="string")try{t=JSON.parse(e)}catch(s){return Jc.warn({strategyInput:e,err:s},"Failed to parse strategy JSON"),{steps:[]}}else t=e;return{steps:this.normalizeSteps(t)}}static normalizeSteps(e){return Array.isArray(e)?e.map((t,n)=>typeof t=="string"?{id:`step-${n}`,description:t,status:"pending"}:typeof t=="object"&&t!==null?{id:t.id||`step-${n}`,description:t.description||t.content||t.name||`Step ${n+1}`,status:t.status||"pending",dependencies:t.dependencies||t.deps,verification:t.verification,...t}:{id:`step-${n}`,description:String(t),status:"pending"}):e.steps&&Array.isArray(e.steps)?this.normalizeSteps(e.steps):typeof e=="object"?Object.entries(e).map(([t,n],s)=>typeof n=="string"?{id:t,description:n,status:"pending"}:typeof n=="object"&&n!==null?{id:t,description:n.description||n.content||n.name||t,status:n.status||"pending",dependencies:n.dependencies||n.deps,verification:n.verification,...n}:{id:t||`step-${s}`,description:String(n),status:"pending"}):[]}static stringify(e){return JSON.stringify(e,null,2)}static validate(e){let t=[];if(!e)return{valid:!0,errors:[]};try{let n=this.normalize(e),s=new Set;for(let r of n.steps)if(s.has(r.id)&&t.push(`Duplicate step ID: ${r.id}`),s.add(r.id),r.dependencies)for(let o of r.dependencies)s.has(o)||t.push(`Step "${r.id}" depends on non-existent step "${o}"`);return{valid:t.length===0,errors:t}}catch(n){return t.push(`Strategy validation failed: ${n instanceof Error?n.message:String(n)}`),{valid:!1,errors:t}}}};P();import Ns from"fs";import bo from"path";import Yc from"os";var Vc=[{id:"step-0",description:"Analyze impact: identify dependents and call sites",status:"pending"},{id:"step-1",description:"Implement refactor and update call sites",status:"pending"},{id:"step-2",description:"Run tests and verify behavior; update docs if needed",status:"pending"}],Qc=[{id:"step-0",description:"Capture requirements and acceptance criteria",status:"pending"},{id:"step-1",description:"Implement feature with tests",status:"pending"},{id:"step-2",description:"Integrate and verify end-to-end",status:"pending"}],Kc=[{id:"step-0",description:"Reproduce the bug and document steps",status:"pending"},{id:"step-1",description:"Diagnose root cause and plan fix",status:"pending"},{id:"step-2",description:"Apply fix and add/update regression test",status:"pending"},{id:"step-3",description:"Verify fix and run full test suite",status:"pending"}],Eo=[{id:"refactoring",name:"Refactoring",description:"Impact analysis \u2192 implementation \u2192 verification",defaultGoal:"Refactor {{target}} safely with full impact analysis and verification.",steps:Vc},{id:"feature",name:"Feature",description:"Requirements \u2192 implementation \u2192 testing",defaultGoal:"Implement {{target}} with clear requirements and end-to-end verification.",steps:Qc},{id:"bug-fix",name:"Bug fix",description:"Reproduction \u2192 diagnosis \u2192 fix \u2192 regression test",defaultGoal:"Fix {{target}}: reproduce, diagnose, fix, and add regression test.",steps:Kc}],As=new Map(Eo.map(i=>[i.id,i])),Wn=!1;function Xc(){if(Wn)return;let i=bo.join(Yc.homedir(),".shadow","templates");if(!Ns.existsSync(i)){_.debug({templatesDir:i},"Custom templates directory does not exist"),Wn=!0;return}try{let e=Ns.readdirSync(i).filter(t=>t.endsWith(".json"));for(let t of e)try{let n=bo.join(i,t),s=Ns.readFileSync(n,"utf8"),r=JSON.parse(s);if(!r.id||!r.name||!r.defaultGoal||!r.steps){_.warn({file:t,template:r},"Invalid custom template structure - skipping");continue}if(!Array.isArray(r.steps)||r.steps.length===0){_.warn({file:t},"Template has no steps - skipping");continue}if(Eo.some(o=>o.id===r.id)){_.warn({file:t,templateId:r.id},"Custom template ID conflicts with built-in - skipping");continue}As.set(r.id,r),_.info({file:t,templateId:r.id},"Loaded custom template")}catch(n){_.warn({file:t,error:n},"Failed to load custom template")}Wn=!0}catch(e){_.warn({error:e,templatesDir:i},"Failed to read custom templates directory"),Wn=!0}}function Zc(i){return Xc(),As.get(i)}function el(i,e){let t=i;for(let[n,s]of Object.entries(e))t=t.replace(new RegExp(`\\{\\{${n}\\}\\}`,"g"),s);return t}function So(i,e,t={}){let n=Zc(i);if(!n)throw new Error(`Unknown template: ${i}. Use one of: ${Array.from(As.keys()).join(", ")}`);let s=t.target||"scope",r=e||(i==="refactoring"?`Refactor ${s}`:i==="feature"?`Feature: ${s}`:`Fix: ${s}`),o=el(n.defaultGoal,{...t,target:s}),c=Ne.normalize({steps:n.steps}),a=Ne.stringify(c);return{name:r,goal:o,strategy:a}}U();var jn=_.child({module:"mcp:tools:ops:plan"});async function _o(i){let{repoPath:e,name:t,goal:n,strategy:s,missionId:r,parentId:o,outcomeContract:c,templateId:a,templateVars:l}=i,{missions:p}=C.getInstance(e),d=re(e),u=fe(e);jn.info({repoPath:e,name:t,missionId:r,templateId:a},"Planning mission");try{let m=t,f=n,h=s;if(a){let S=So(a,t,l||{});m=m??S.name,f=f??S.goal,h=h??S.strategy}if(!m||!f)throw new Error("Mission requires name and goal (or templateId with optional templateVars).");let b=null;if(h){let S=Ne.normalize(h);b=Ne.stringify(S);let R=Ne.validate(b);R.valid||jn.warn({errors:R.errors,strategy:h},"Strategy validation warnings detected")}let y,g;r?(p.update(r,{name:m,goal:f,strategy_graph:b,commit_sha:u,parent_id:o!==void 0?o:void 0,outcome_contract:c}),y=r,g=`Mission "${m}" updated.`):(y=p.create({name:m,goal:f,strategy_graph:b,status:"planned",git_branch:d,commit_sha:u,parent_id:o||null,verification_context:null,outcome_contract:c||null}),g=`Mission "${m}" planned.`);try{await new ve(e).syncMissionToGitNotes(Number(y))}catch(S){jn.warn({syncError:S,missionId:y},"Git Notes sync deferred")}return{content:[{type:"text",text:JSON.stringify({missionId:y,status:"planned",message:g,strategy_saved:!!h,contract_saved:!!c,from_template:a??void 0,commit:u},null,2)}]}}catch(m){throw jn.error({error:m,repoPath:e},"Failed to plan mission"),new Error(`Failed to plan mission: ${m instanceof Error?m.message:String(m)}`)}}P();U();U();P();var tl=_.child({module:"collision-service"}),Un=class{repoPath;constructor(e){this.repoPath=e}async analyzePotentialCollisions(){let e=re(this.repoPath);if(!e)return[];let{missions:t,intentLogs:n}=C.getInstance(this.repoPath),s=t.findActive().filter(c=>c.git_branch&&c.git_branch!==e),r=[],o=new Set;for(let c of s){let a=c.git_branch;if(o.has(a))continue;o.add(a),tl.info({branch:a,currentBranch:e},"Checking predictive collisions"),Qi(this.repoPath,e,a)&&r.push({branch:a,type:"file",description:`Background merge-tree detected a file-level conflict between '${e}' and '${a}'.`});let p=t.findActive(e),d=new Set;for(let f of p)t.getWorkingSet(f.id).forEach(h=>d.add(h.file_path));let m=t.getWorkingSet(c.id).filter(f=>d.has(f.file_path));m.length>0&&r.push({branch:a,type:"intent",description:`Logical conflict: Mission '${c.name}' on '${a}' is modifying files you are currently working on.`,conflictingFiles:m.map(f=>f.file_path)})}return r}};var Ut=_.child({module:"mcp:tools:ops:briefing"});async function xo(i){let{repoPath:e,missionId:t,scope:n="mission",activeMissionsLimit:s,recentActivityLimit:r=10,compact:o=!1}=i,{missions:c,intentLogs:a}=C.getInstance(e),l=fe(e),p=re(e);Ut.info({repoPath:e,missionId:t,scope:n},"Generating briefing");try{if(n==="project"){let h=c.findActive(p||void 0),b=h.length;s&&h.length>s&&(h=h.slice(0,s));let y=c.findParentOnlyIds(h),g=new Set(y),S=h.filter(N=>!g.has(N.id)),R={};for(let N of h)N.parent_id!=null&&(R[N.parent_id]||(R[N.parent_id]=[]),R[N.parent_id].push(N));let w={},T=new Map(h.map(N=>[N.id,N])),v=Object.keys(R).map(Number),k=v.filter(N=>!T.has(N)),F=k.length>0?c.findByIds(k):[],x=new Map(T);for(let N of F)x.set(N.id,N);for(let N of v){let L=x.get(N);L&&(w[N]={id:L.id,name:L.name??"",goal:L.goal??"",status:L.status??"unknown"})}let I=o?h.map(N=>({...N,strategy_graph:void 0})):h,M=o?S.map(N=>({...N,strategy_graph:void 0})):S,$=a.findRecentDecisionActivity(r),j={scope:"project",counts:c.getStats(),analytics:c.getAnalytics(),active_missions:I,parent_only_ids:y,missions_by_parent:o?Object.fromEntries(Object.entries(R).map(([N,L])=>[N,L.map(A=>({...A,strategy_graph:void 0}))])):R,parents_summary:Object.keys(w).length?w:void 0,close_parent_when_all_children_done:'When all children of a parent are completed, call shadow_ops_track({ missionId: <parent_id>, status: "completed" }) with no stepId.',next_work_candidates:M,recent_completed:c.findRecentCompleted(),recent_activity:$,meta:{current_branch:p,current_commit:l,activeMissionsTotal:b,activeMissionsShown:h.length,hasMoreMissions:s?b>s:!1}};if(n==="project"){let N=y.map(L=>{let A=h.find(te=>te.id===L),D=R[L]??[];return{parent:A,children:D}});j.missions_grouped_by_parent=N}let H=S.length===0?{tool:"shadow_ops_plan",reason:"No open work; create a mission"}:{tool:"shadow_ops_track",reason:"Pick one from next_work_candidates and run /continue"};return{content:[{type:"text",text:JSON.stringify(j,null,2)}],suggestedNext:H}}let d;if(t?d=c.findById(t):d=c.findActive(p||void 0)[0],!d)return{content:[{type:"text",text:"No active missions found. Ready for new assignment."}]};let u="No external shadow changes detected.";try{new mt(e).analyzeGhostChanges(d.commit_sha||void 0),u="Shadow Trace completed: Checked for external modifications."}catch(h){Ut.warn({error:h},"Ghost analysis failed")}let m={repaired:0,failed:0};try{m=new Te(e).detectAndRepairShifts()}catch(h){Ut.warn({error:h},"Symbol shift repair failed")}let f={mission:{id:d.id,name:d.name,goal:d.goal,status:d.status,last_updated:new Date(d.updated_at*1e3).toISOString(),git_branch:d.git_branch,commit_sha:d.commit_sha,outcome_contract:d.outcome_contract},artifacts:c.getArtifacts(d.id),shadow_trace:{ghost_analysis:u,symbols_repaired:m.repaired,symbols_missing:m.failed},context:{current_commit:l,working_set:c.getWorkingSet(d.id).map(h=>h.file_path)},strategy_snapshot:d.strategy_graph?JSON.parse(d.strategy_graph):null,recent_activity:a.findByMission(d.id,15),ancestor_activity:[],predictive_collisions:[]};try{let h=new Un(e);f.predictive_collisions=await h.analyzePotentialCollisions()}catch(h){Ut.warn({error:h},"Predictive collision analysis failed")}if(n==="mission"){let y=new nt(e).getAncestorMissionIds().filter(g=>g!==d?.id);if(y.length>0)for(let g of y){let S=a.findByMission(g,5);f.ancestor_activity.push(...S)}}return{content:[{type:"text",text:JSON.stringify(f,null,2)}]}}catch(d){throw Ut.error({error:d,repoPath:e},"Failed to generate briefing"),new Error(`Failed to generate briefing: ${d instanceof Error?d.message:String(d)}`)}}P();U();U();P();P();var nl=_.child({module:"reasoning-engine"}),Bn=class{analyze(e){nl.debug({logCount:e.length},"Performing reasoning pass over intent logs");let t={context:[],decisions:[],consequences:[],recommendations:[],unclassified:[]};for(let n of e){let s=n.content.toLowerCase(),r=this.matchesContext(s,n.type),o=this.matchesDecision(s,n.type),c=this.matchesConsequence(s,n.type),a=this.matchesRecommendation(s,n.type);r?t.context.push(n.content):o?t.decisions.push(n.content):a?t.recommendations.push(n.content):c?t.consequences.push(n.content):n.type==="decision"?t.decisions.push(n.content):n.type==="discovery"||n.type==="fix"?t.consequences.push(n.content):t.unclassified.push(n.content)}return t}matchesContext(e,t){return["because","since","given","due to","context: ","problem: ","situation:"].some(s=>e.includes(s))||t==="blocker"}matchesDecision(e,t){return["decided","chose","implemented","integrated","using","selected","strategy:"].some(s=>e.includes(s))||t==="decision"}matchesConsequence(e,t){return["results in","enables","allows","impact: ","consequence: ","next steps: ","meaning"].some(s=>e.includes(s))||t==="fix"}matchesRecommendation(e,t){return["should","recommend","suggest","next work","future","consider","strategy advice"].some(s=>e.includes(s))}};var zn=_.child({module:"briefing-engine"}),Ge=class{intentLogs;missions;reasoningEngine;persistencePivot;constructor(e){let{intentLogs:t,missions:n}=C.getInstance(e);this.intentLogs=t,this.missions=n,this.reasoningEngine=new Bn,this.persistencePivot=new ve(e)}async distillMission(e,t=!0){zn.info({missionId:e},"Synthesizing mission intelligence into Tactical Briefing...");let n=this.gatherConsolidatedLogs(e);if(n.length===0)return{missionId:e,adr:"No intent logs found for this mission.",metrics:{totalLogs:0,symbolCount:0}};let s=this.reasoningEngine.analyze(n),r=new Set(n.map(c=>c.symbol_name).filter(Boolean)),o=`# Architectural Decision Record: Mission #${e}
+    `).run(e.sourceRepo,e.sourceFilePath,e.sourceSymbolId||null,e.targetRepo,e.targetFilePath,e.targetSymbolId||null,e.relationship,e.metadata?JSON.stringify(e.metadata):null,e.confidence??1).lastInsertRowid}scanEdges(){return Rl.info({name:this.connection.nameValue},"Starting edge scan"),Mo(this)}getAttachedRepos(){return this.connection.getAttachedRepos()}get name(){return this.connection.nameValue}};var Do=S.child({module:"fused-index"}),Ys=class{connection;service;configName;constructor(e){this.configName=e.name,this.connection=new Zn(e),this.service=new es(this.connection)}attachRepo(e){this.connection.attachRepo(e)}detachRepo(e){this.connection.detachRepo(e)}refreshRepo(e){this.connection.refreshRepo(e)}getAttachedRepos(){return this.connection.getAttachedRepos()}checkHealth(){return this.connection.checkHealth()}close(){this.connection.close(),Do.info({name:this.configName},"Fused index closed")}getStatus(){let e=this.service.executeRawQuery("SELECT COUNT(*) as count FROM virtual_edges");return{name:this.connection.nameValue,path:this.connection.dbPath,attachedRepos:this.connection.getAttachedRepos().length,repos:this.connection.getAttachedRepos(),virtualEdgesCount:e[0]?.count||0}}searchExports(e,t=50){return this.service.searchExports(e,t)}searchFiles(e,t=50){return this.service.searchFiles(e,t)}getVirtualEdges(e,t){return this.service.getVirtualEdges(e,t)}addVirtualEdge(e){return this.service.addVirtualEdge(e)}scanEdges(){return this.service.scanEdges()}buildUnionQuery(e,t,n){return this.service.buildUnionQuery(e,t,n)}executeFederatedQuery(e,...t){return this.service.executeFederatedQuery(e,...t)}executeRawQuery(e,...t){return this.service.executeRawQuery(e,...t)}buildAdvancedQuery(e){return this.service.buildAdvancedQuery(e)}buildFtsQuery(e,t,n,s,r){return this.service.buildFtsQuery(e,t,n,s,r)}buildCrossRepoImportsQuery(){return this.service.buildCrossRepoImportsQuery()}refreshAll(){this.connection.refreshAll()}validateSchemas(){return Do.debug({name:this.configName},"Delegating validateSchemas"),this.connection.validateSchemas()}},Js=new Map;function Oo(i){let e=Js.get(i.name);if(e){let n=new Set(e.getAttachedRepos().map(o=>o.repoPath)),s=new Set(i.repoPaths.map(o=>kl.resolve(o)));if(n.size===s.size&&[...n].every(o=>s.has(o)))return e;e.close(),Js.delete(i.name)}let t=new Ys(i);return Js.set(i.name,t),t}W();var Il=S.child({module:"mcp:tools:workspace:fuse"});async function Fo(i){let{repoPaths:e,name:t}=i;Il.info({repoCount:e.length,name:t},"Creating fused workspace index");try{let n=Oo({repoPaths:e,name:t||`workspace-${Date.now()}`});return{content:[{type:"text",text:JSON.stringify({message:"Fused index created",status:n.getStatus()},null,2)}]}}catch(n){throw new Error(`Failed to fuse: ${n.message}`)}}import ts from"path";async function Wo(i){let[e,...t]=i;if(!e||!["missions","link","fuse"].includes(e)){console.log(""),console.log(`  ${f.bold("Usage: ")} liquid-shadow workspace <missions|link> [options]`),console.log(""),console.log(`  ${f.bold("Commands: ")}`),console.log(`    ${f.cyan("missions")} <paths...>  Get unified view of missions across repositories`),console.log(`    ${f.cyan("link")} <args...>       Link missions across repositories`),console.log(`    ${f.cyan("fuse")} <paths...>       Create fused index for cross-repo search (use --name for custom name)`),console.log(""),console.log(`  ${f.bold("Examples: ")}`),console.log("    liquid-shadow workspace missions /frontend /backend"),console.log("    liquid-shadow workspace link /frontend 5 /backend 12"),console.log("    liquid-shadow workspace fuse /frontend /backend --name my-app"),console.log("");return}await B(async()=>{switch(e){case"missions":{if(t.length===0){console.error(`  ${f.red("\u2716")} Please provide at least one repository path`);return}let n=t.map(r=>ts.resolve(r)),s=await $o({repoPaths:n});if(console.log(""),console.log(`  ${f.bold("Workspace Missions")}`),console.log(""),s.content&&s.content[0]){let r=JSON.parse(s.content[0].text);r.missions&&r.missions.length>0?r.missions.forEach(o=>{console.log(`  ${f.cyan("\u2022")} ${f.bold(o.name)} (ID: ${o.id})`),console.log(`    ${f.dim("Repo: ")} ${o.repo_path}`),console.log(`    ${f.dim("Status: ")} ${o.status}`),console.log(`    ${f.dim("Branch: ")} ${o.git_branch||"N/A"}`),o.cross_repo_links&&o.cross_repo_links.length>0&&console.log(`    ${f.dim("Links: ")} ${o.cross_repo_links.length} cross-repo link(s)`),console.log("")}):(console.log(`  ${f.yellow("\u26A0")} No missions found`),console.log(""))}break}case"link":{if(t.length<4){console.error(""),console.error(`  ${f.red("\u2716")} Usage: workspace link <parent-repo> <parent-id> <child-repo> <child-id> [relationship]`),console.error("");return}let[n,s,r,o,c]=t;await No({parentRepoPath:ts.resolve(n),parentMissionId:parseInt(s,10),childRepoPath:ts.resolve(r),childMissionId:parseInt(o,10),relationship:c}),console.log(""),console.log(`  ${f.green("\u2714")} ${f.bold("Missions linked successfully")}`),console.log(`    ${f.dim("Parent: ")} ${n} (Mission ${s})`),console.log(`    ${f.dim("Child: ")} ${r} (Mission ${o})`),c&&console.log(`    ${f.dim("Relationship: ")} ${c}`),console.log("");break}case"fuse":{if(t.length===0){console.error(`  ${f.red("\u2716")} Please provide at least one repository path`);return}let n,s=[];for(let o=0;o<t.length;o++)t[o]==="--name"&&o+1<t.length?(n=t[o+1],o++):s.push(ts.resolve(t[o]));let r=await Fo({repoPaths:s,name:n});if(console.log(""),console.log(`  ${f.green("\u2714")} ${f.bold("Fused Index Created")}`),r.content&&r.content[0]){let o=JSON.parse(r.content[0].text);console.log(`    ${f.dim("Name: ")} ${o.fused_index.name}`),console.log(`    ${f.dim("Path: ")} ${o.fused_index.path}`),console.log(`    ${f.dim("Repos: ")} ${o.fused_index.attachedRepos}`),console.log(""),console.log(`  ${f.bold("Instructions:")}`),console.log(`    ${o.instructions}`)}console.log("");break}}})}W();W();var Cl=S.child({module:"strategy-normalizer"}),je=class{static normalize(e){if(!e)return{steps:[]};let t;if(typeof e=="string")try{t=JSON.parse(e)}catch(s){return Cl.warn({strategyInput:e,err:s},"Failed to parse strategy JSON"),{steps:[]}}else t=e;return{steps:this.normalizeSteps(t)}}static normalizeSteps(e){return Array.isArray(e)?e.map((t,n)=>typeof t=="string"?{id:`step-${n}`,description:t,status:"pending"}:typeof t=="object"&&t!==null?{id:t.id||`step-${n}`,description:t.description||t.content||t.name||`Step ${n+1}`,status:t.status||"pending",dependencies:t.dependencies||t.deps,verification:t.verification,...t}:{id:`step-${n}`,description:String(t),status:"pending"}):e.steps&&Array.isArray(e.steps)?this.normalizeSteps(e.steps):typeof e=="object"?Object.entries(e).map(([t,n],s)=>typeof n=="string"?{id:t,description:n,status:"pending"}:typeof n=="object"&&n!==null?{id:t,description:n.description||n.content||n.name||t,status:n.status||"pending",dependencies:n.dependencies||n.deps,verification:n.verification,...n}:{id:t||`step-${s}`,description:String(n),status:"pending"}):[]}static stringify(e){return JSON.stringify(e,null,2)}static validate(e){let t=[];if(!e)return{valid:!0,errors:[]};try{let n=this.normalize(e),s=new Set;for(let r of n.steps)if(s.has(r.id)&&t.push(`Duplicate step ID: ${r.id}`),s.add(r.id),r.dependencies)for(let o of r.dependencies)s.has(o)||t.push(`Step "${r.id}" depends on non-existent step "${o}"`);return{valid:t.length===0,errors:t}}catch(n){return t.push(`Strategy validation failed: ${n instanceof Error?n.message:String(n)}`),{valid:!1,errors:t}}}};W();import Vs from"fs";import Ho from"path";import Ll from"os";var $l=[{id:"step-0",description:"Analyze impact: identify dependents and call sites",status:"pending"},{id:"step-1",description:"Implement refactor and update call sites",status:"pending"},{id:"step-2",description:"Run tests and verify behavior; update docs if needed",status:"pending"}],Nl=[{id:"step-0",description:"Capture requirements and acceptance criteria",status:"pending"},{id:"step-1",description:"Implement feature with tests",status:"pending"},{id:"step-2",description:"Integrate and verify end-to-end",status:"pending"}],Al=[{id:"step-0",description:"Reproduce the bug and document steps",status:"pending"},{id:"step-1",description:"Diagnose root cause and plan fix",status:"pending"},{id:"step-2",description:"Apply fix and add/update regression test",status:"pending"},{id:"step-3",description:"Verify fix and run full test suite",status:"pending"}],Uo=[{id:"refactoring",name:"Refactoring",description:"Impact analysis \u2192 implementation \u2192 verification",defaultGoal:"Refactor {{target}} safely with full impact analysis and verification.",steps:$l},{id:"feature",name:"Feature",description:"Requirements \u2192 implementation \u2192 testing",defaultGoal:"Implement {{target}} with clear requirements and end-to-end verification.",steps:Nl},{id:"bug-fix",name:"Bug fix",description:"Reproduction \u2192 diagnosis \u2192 fix \u2192 regression test",defaultGoal:"Fix {{target}}: reproduce, diagnose, fix, and add regression test.",steps:Al}],Qs=new Map(Uo.map(i=>[i.id,i])),ns=!1;function Pl(){if(ns)return;let i=Ho.join(Ll.homedir(),".shadow","templates");if(!Vs.existsSync(i)){S.debug({templatesDir:i},"Custom templates directory does not exist"),ns=!0;return}try{let e=Vs.readdirSync(i).filter(t=>t.endsWith(".json"));for(let t of e)try{let n=Ho.join(i,t),s=Vs.readFileSync(n,"utf8"),r=JSON.parse(s);if(!r.id||!r.name||!r.defaultGoal||!r.steps){S.warn({file:t,template:r},"Invalid custom template structure - skipping");continue}if(!Array.isArray(r.steps)||r.steps.length===0){S.warn({file:t},"Template has no steps - skipping");continue}if(Uo.some(o=>o.id===r.id)){S.warn({file:t,templateId:r.id},"Custom template ID conflicts with built-in - skipping");continue}Qs.set(r.id,r),S.info({file:t,templateId:r.id},"Loaded custom template")}catch(n){S.warn({file:t,error:n},"Failed to load custom template")}ns=!0}catch(e){S.warn({error:e,templatesDir:i},"Failed to read custom templates directory"),ns=!0}}function Ml(i){return Pl(),Qs.get(i)}function Dl(i,e){let t=i;for(let[n,s]of Object.entries(e))t=t.replace(new RegExp(`\\{\\{${n}\\}\\}`,"g"),s);return t}function jo(i,e,t={}){let n=Ml(i);if(!n)throw new Error(`Unknown template: ${i}. Use one of: ${Array.from(Qs.keys()).join(", ")}`);let s=t.target||"scope",r=e||(i==="refactoring"?`Refactor ${s}`:i==="feature"?`Feature: ${s}`:`Fix: ${s}`),o=Dl(n.defaultGoal,{...t,target:s}),c=je.normalize({steps:n.steps}),a=je.stringify(c);return{name:r,goal:o,strategy:a}}z();var ss=S.child({module:"mcp:tools:ops:plan"});async function zo(i){let{repoPath:e,name:t,goal:n,strategy:s,missionId:r,parentId:o,outcomeContract:c,templateId:a,templateVars:l}=i,{missions:p}=C.getInstance(e),u=ce(e),d=xe(e);ss.info({repoPath:e,name:t,missionId:r,templateId:a},"Planning mission");try{let m=t,h=n,g=s;if(a){let E=jo(a,t,l||{});m=m??E.name,h=h??E.goal,g=g??E.strategy}if(!m||!h)throw new Error("Mission requires name and goal (or templateId with optional templateVars).");let _=null;if(g){let E=je.normalize(g);_=je.stringify(E);let w=je.validate(_);w.valid||ss.warn({errors:w.errors,strategy:g},"Strategy validation warnings detected")}let b,y;r?(p.update(r,{name:m,goal:h,strategy_graph:_,commit_sha:d,parent_id:o!==void 0?o:void 0,outcome_contract:c}),b=r,y=`Mission "${m}" updated.`):(b=p.create({name:m,goal:h,strategy_graph:_,status:"planned",git_branch:u,commit_sha:d,parent_id:o||null,verification_context:null,outcome_contract:c||null}),y=`Mission "${m}" planned.`);try{await new Re(e).syncMissionToGitNotes(Number(b))}catch(E){ss.warn({syncError:E,missionId:b},"Git Notes sync deferred")}return{content:[{type:"text",text:JSON.stringify({missionId:b,status:"planned",message:y,strategy_saved:!!g,contract_saved:!!c,from_template:a??void 0,commit:d},null,2)}]}}catch(m){throw ss.error({error:m,repoPath:e},"Failed to plan mission"),new Error(`Failed to plan mission: ${m instanceof Error?m.message:String(m)}`)}}W();z();z();W();var Ol=S.child({module:"collision-service"}),sn=class{repoPath;constructor(e){this.repoPath=e}async analyzePotentialCollisions(){let e=ce(this.repoPath);if(!e)return[];let{missions:t,intentLogs:n}=C.getInstance(this.repoPath),s=t.findActive().filter(c=>c.git_branch&&c.git_branch!==e),r=[],o=new Set;for(let c of s){let a=c.git_branch;if(o.has(a))continue;o.add(a),Ol.info({branch:a,currentBranch:e},"Checking predictive collisions"),yr(this.repoPath,e,a)&&r.push({branch:a,type:"file",description:`Background merge-tree detected a file-level conflict between '${e}' and '${a}'.`});let p=t.findActive(e),u=new Set;for(let h of p)t.getWorkingSet(h.id).forEach(g=>u.add(g.file_path));let m=t.getWorkingSet(c.id).filter(h=>u.has(h.file_path));m.length>0&&r.push({branch:a,type:"intent",description:`Logical conflict: Mission '${c.name}' on '${a}' is modifying files you are currently working on.`,conflictingFiles:m.map(h=>h.file_path)})}return r}};var is=class i{constructor(e){this.intentLogs=e}static RECENCY_HALF_LIFE_HOURS=48;static WEIGHTS={recency:.4,activity:.3,statusBoost:.2,blockerBoost:.1};score(e){if(e.length===0)return[];let t=Math.floor(Date.now()/1e3),n=e.map(a=>a.id),s=this.intentLogs.countByMissions(n),r=this.intentLogs.findMissionsWithBlockers(n),o=Math.max(1,...Object.values(s));return e.map(a=>{let l=this.computeRecency(a.updated_at,t),p=(s[a.id]||0)/o,u=this.computeStatusBoost(a.status),d=r.has(a.id)?1:0,m=i.WEIGHTS,h=l*m.recency+p*m.activity+u*m.statusBoost+d*m.blockerBoost;return{mission:a,score:Math.round(h*1e3)/1e3,breakdown:{recency:Math.round(l*1e3)/1e3,activity:Math.round(p*1e3)/1e3,blockerBoost:d,statusBoost:u}}}).sort((a,l)=>l.score-a.score)}computeRecency(e,t){let n=Math.max(0,(t-e)/3600);return Math.pow(.5,n/i.RECENCY_HALF_LIFE_HOURS)}computeStatusBoost(e){switch(e){case"in-progress":return 1;case"verifying":return .8;case"planned":return .4;default:return 0}}};var ut=S.child({module:"mcp:tools:ops:briefing"});async function Bo(i){let{repoPath:e,missionId:t,scope:n="mission",altitude:s,activeMissionsLimit:r,recentActivityLimit:o,compact:c}=i,a=c??(s==="orbit"||s==="atmosphere"),l=o??(s==="orbit"?0:s==="ground"?20:10),{missions:p,intentLogs:u}=C.getInstance(e),d=xe(e),m=ce(e);ut.info({repoPath:e,missionId:t,scope:n},"Generating briefing");try{if(n==="project"){let E=p.findActive(m||void 0),w=E.length;r&&E.length>r&&(E=E.slice(0,r));let x=p.findParentOnlyIds(E),v=new Set(x),k=E.filter(j=>!v.has(j.id)),O=new is(u).score(k),T=.15,I=3,U=a&&O.length>I?O.filter((j,F)=>F<I||j.score>=T):O,H=U.map(j=>j.mission),P=new Map(U.map(j=>[j.mission.id,j.score])),R=j=>({id:j.id,name:j.name,goal:j.goal,status:j.status,relevance:P.get(j.id)}),A=H.length===0&&E.length===0?{tool:"shadow_ops_plan",reason:"No open work; create a mission"}:{tool:"shadow_ops_track",reason:"Select a mission from hierarchy or next_work_candidates to execute"};if(s==="orbit"){let j={scope:"project",altitude:"orbit",counts:p.getStats(),next_work_candidates:H.map(R),meta:{current_branch:m,activeMissionsTotal:w}};return{content:[{type:"text",text:JSON.stringify(j,null,2)}],suggestedNext:A}}let D={},$=[];for(let j of E)j.parent_id!=null?(D[j.parent_id]||(D[j.parent_id]=[]),D[j.parent_id].push(j)):$.push(j);let L=p.findRecentCompleted(5).map(R);if(s==="ground"){let j=l>0?u.findRecentDecisionActivity(l):void 0,F=x.map(de=>({parent:E.find(ie=>ie.id===de),children:D[de]??[]})),M=$.filter(de=>!v.has(de.id)),_e={scope:"project",altitude:"ground",counts:p.getStats(),analytics:p.getAnalytics(),hierarchy:F.length>0?F:void 0,standalone_active:M.length>0?M:void 0,active_missions:F.length===0?E:void 0,next_work_candidates:H,recent_completed:L,recent_activity:j,meta:{current_branch:m,current_commit:d,activeMissionsTotal:w,active_limit_applied:!!r,relevance_filtered:U.length<O.length?{shown:U.length,total:O.length}:void 0}};return{content:[{type:"text",text:JSON.stringify(_e,null,2)}],suggestedNext:A}}let Y=l>0?u.findRecentDecisionActivity(l):void 0,he=E;a&&(he=E.map(j=>({...j,strategy_graph:void 0,verification_context:void 0,outcome_contract:void 0})));let pe=x.map(j=>{let F=E.find(_e=>_e.id===j);return{parent:a?{...F,strategy_graph:void 0,verification_context:void 0}:F,children:D[j]??[]}}),ae=$.filter(j=>!v.has(j.id)),ye={scope:"project",altitude:"atmosphere",counts:p.getStats(),analytics:p.getAnalytics(),hierarchy:pe.length>0?pe:void 0,standalone_active:ae.length>0?ae:void 0,active_missions:pe.length===0?he:void 0,next_work_candidates:H.map(R),recent_completed:L,recent_activity:Y,meta:{current_branch:m,current_commit:d,activeMissionsTotal:w,active_limit_applied:!!r,relevance_filtered:U.length<O.length?{shown:U.length,total:O.length}:void 0}};return{content:[{type:"text",text:JSON.stringify(ye,null,2)}],suggestedNext:A}}let h;if(t?h=p.findById(t):h=p.findActive(m||void 0)[0],!h)return{content:[{type:"text",text:"No active missions found. Ready for new assignment."}]};let g=null;try{h.strategy_graph&&(g=JSON.parse(h.strategy_graph))}catch{ut.warn({missionId:h.id},"Failed to parse strategy graph")}if(s==="orbit"){let E={altitude:"orbit",mission:{id:h.id,name:h.name,goal:h.goal,status:h.status,last_updated:new Date(h.updated_at*1e3).toISOString()},strategy_snapshot:g};return{content:[{type:"text",text:JSON.stringify(E,null,2)}]}}let _="No external shadow changes detected.";try{new kt(e).analyzeGhostChanges(h.commit_sha||void 0),_="Shadow Trace completed: Checked for external modifications."}catch(E){ut.warn({error:E},"Ghost analysis failed")}let b={repaired:0,failed:0};try{b=new Pe(e).detectAndRepairShifts()}catch(E){ut.warn({error:E},"Symbol shift repair failed")}if(s==="ground"){let E={altitude:"ground",mission:{id:h.id,name:h.name,goal:h.goal,status:h.status,last_updated:new Date(h.updated_at*1e3).toISOString(),git_branch:h.git_branch,commit_sha:h.commit_sha,outcome_contract:h.outcome_contract},artifacts:p.getArtifacts(h.id),shadow_trace:{ghost_analysis:_,symbols_repaired:b.repaired,symbols_missing:b.failed},context:{current_commit:d,working_set:p.getWorkingSet(h.id).map(w=>w.file_path)},strategy_snapshot:g,recent_activity:u.findByMission(h.id,l||20),ancestor_activity_summary:[],predictive_collisions:[]};try{let w=new sn(e);E.predictive_collisions=await w.analyzePotentialCollisions()}catch(w){ut.warn({error:w},"Predictive collision analysis failed")}if(h.parent_id){let w=u.findByMission(h.parent_id,5);E.ancestor_activity_summary=w.map(x=>({type:x.type,content:x.content,date:new Date(x.created_at*1e3).toISOString()}))}return{content:[{type:"text",text:JSON.stringify(E,null,2)}]}}let y={altitude:"atmosphere",mission:{id:h.id,name:h.name,goal:h.goal,status:h.status,last_updated:new Date(h.updated_at*1e3).toISOString(),git_branch:h.git_branch,commit_sha:h.commit_sha,outcome_contract:h.outcome_contract},artifacts:p.getArtifacts(h.id),shadow_trace:{ghost_analysis:_,symbols_repaired:b.repaired,symbols_missing:b.failed},context:{current_commit:d,working_set:p.getWorkingSet(h.id).map(E=>E.file_path)},strategy_snapshot:g,recent_activity:u.findByMissionPreferCrystal(h.id,15),ancestor_activity_summary:[],predictive_collisions:[]};try{let E=new sn(e);y.predictive_collisions=await E.analyzePotentialCollisions()}catch(E){ut.warn({error:E},"Predictive collision analysis failed")}if(h.parent_id){let E=u.findByMissionPreferCrystal(h.parent_id,3);y.ancestor_activity_summary=E.map(w=>({type:w.type,content:w.content,date:new Date(w.created_at*1e3).toISOString()}))}return{content:[{type:"text",text:JSON.stringify(y,null,2)}]}}catch(h){throw ut.error({error:h,repoPath:e},"Failed to generate briefing"),new Error(`Failed to generate briefing: ${h instanceof Error?h.message:String(h)}`)}}W();z();z();W();W();var Fl=S.child({module:"reasoning-engine"}),rs=class{analyze(e){Fl.debug({logCount:e.length},"Performing reasoning pass over intent logs");let t={context:[],decisions:[],consequences:[],recommendations:[],unclassified:[]};for(let n of e){let s=n.content.toLowerCase(),r=this.matchesContext(s,n.type),o=this.matchesDecision(s,n.type),c=this.matchesConsequence(s,n.type),a=this.matchesRecommendation(s,n.type);r?t.context.push(n.content):o?t.decisions.push(n.content):a?t.recommendations.push(n.content):c?t.consequences.push(n.content):n.type==="decision"?t.decisions.push(n.content):n.type==="discovery"||n.type==="fix"?t.consequences.push(n.content):t.unclassified.push(n.content)}return t}matchesContext(e,t){return["because","since","given","due to","context: ","problem: ","situation:"].some(s=>e.includes(s))||t==="blocker"}matchesDecision(e,t){return["decided","chose","implemented","integrated","using","selected","strategy:"].some(s=>e.includes(s))||t==="decision"}matchesConsequence(e,t){return["results in","enables","allows","impact: ","consequence: ","next steps: ","meaning"].some(s=>e.includes(s))||t==="fix"}matchesRecommendation(e,t){return["should","recommend","suggest","next work","future","consider","strategy advice"].some(s=>e.includes(s))}};var os=S.child({module:"briefing-engine"}),ze=class{intentLogs;missions;reasoningEngine;persistencePivot;constructor(e){let{intentLogs:t,missions:n}=C.getInstance(e);this.intentLogs=t,this.missions=n,this.reasoningEngine=new rs,this.persistencePivot=new Re(e)}async distillMission(e,t=!0){os.info({missionId:e},"Synthesizing mission intelligence into Tactical Briefing...");let n=this.gatherConsolidatedLogs(e);if(n.length===0)return{missionId:e,adr:"No intent logs found for this mission.",metrics:{totalLogs:0,symbolCount:0}};let s=this.reasoningEngine.analyze(n),r=new Set(n.map(c=>c.symbol_name).filter(Boolean)),o=`# Architectural Decision Record: Mission #${e}
 
 `;if(o+=`## Summary of Intent
 `,o+=`Collected ${n.length} intent events across ${r.size} symbols.
@@ -810,8 +838,8 @@ WHERE i.resolved_path IS NOT NULL`);return t.join(`
 `}),o+=`
 `),o+=`
 --- 
-*Generated by Liquid Shadow Reasoning Engine v1*`,t){this.intentLogs.create({mission_id:e,type:"adr",content:o,confidence:1,symbol_id:null,file_path:null,symbol_name:null,signature:null,commit_sha:null});try{await this.persistencePivot.syncMissionToGitNotes(e),zn.info({missionId:e},"Tactical Briefing synthesized, archived, and synced to Git Notes.")}catch(c){zn.error({missionId:e,error:c},"Failed to sync ADR to Git Notes")}}else zn.info({missionId:e},"Tactical Briefing synthesized (dry-run).");return{missionId:e,adr:o,metrics:{totalLogs:n.length,symbolCount:r.size}}}gatherConsolidatedLogs(e,t=0){let n=this.intentLogs.findByMission(e,500);if(t>2)return n;let s=this.missions.findByParentId(e);for(let r of s)n.push(...this.gatherConsolidatedLogs(r.id,t+1));return n.filter(r=>r.type!=="adr"&&r.type!=="system")}};P();import{Visitor as sl}from"@swc/core/Visitor.js";import*as To from"@swc/core";var il=_.child({module:"verification-engine"}),Ms=class extends sl{foundUsage=!1;foundImport=!1;rule;currentFunctionName=null;constructor(e){super(),this.rule=e}visitImportDeclaration(e){return this.rule.type==="import"&&e.source.value===this.rule.target&&(this.foundImport=!0),super.visitImportDeclaration(e)}visitFunctionDeclaration(e){let t=this.currentFunctionName;this.currentFunctionName=e.identifier.value;let n=super.visitFunctionDeclaration(e);return this.currentFunctionName=t,n}visitCallExpression(e){return this.rule.type==="usage"&&e.callee.type==="Identifier"&&e.callee.value===this.rule.target&&(!this.rule.context||this.currentFunctionName===this.rule.context)&&(this.foundUsage=!0),super.visitCallExpression(e)}},Gn=class{async verify(e,t){try{let n=await To.parse(e,{syntax:"typescript",tsx:!0,comments:!1}),s=new Ms(t);s.visitProgram(n);let r=!1,o=[];if(t.type==="import")r=s.foundImport,r||o.push(`Required import "${t.target}" not found.`);else if(t.type==="usage"){if(r=s.foundUsage,!r){let c=t.context?` in function "${t.context}"`:"";o.push(`Required usage of "${t.target}"${c} not found.`)}}else t.type==="pattern"&&(r=new RegExp(t.target).test(e),r||o.push(`Required pattern "${t.target}" not found.`));return{passed:r,errors:o}}catch(n){return il.error({error:n},"Verification failed due to parse error"),{passed:!1,errors:[`Parse error: ${n.message}`]}}}};import Ro from"path";import qn from"fs";var bt=_.child({module:"mcp:tools:ops:track"});async function vo(i){let{repoPath:e,missionId:t,stepId:n,status:s,contextPivot:r,updates:o,artifacts:c}=i,{missions:a,intentLogs:l}=C.getInstance(e),p=fe(e);bt.info({repoPath:e,missionId:t,singleStep:n,batchCount:o?.length,artifactCount:c?.length},"Updating mission status");try{if(c&&Array.isArray(c))for(let m of c)a.addArtifact(t,m.type,m.identifier,m.metadata);let d=[];if(o&&Array.isArray(o)&&d.push(...o),n&&s&&d.push({stepId:n,status:s,contextPivot:r}),s&&!n){if(a.updateStatus(t,s,p||void 0),l.create({mission_id:t,type:"system",content:`Mission status changed to "${s}"`,confidence:1,symbol_id:null,file_path:null,symbol_name:null,signature:null,commit_sha:p}),s==="completed")try{await new Ge(e).distillMission(t),bt.info({missionId:t},"Auto-Synthesis completed successfully")}catch(m){bt.warn({synthesisError:m,missionId:t},"Auto-Synthesis deferred or failed")}if(!d.length)return{content:[{type:"text",text:JSON.stringify({missionId:t,status:s,message:"Mission status updated successfully.",artifacts_added:c?.length||0,commit:p},null,2)}]}}if(d.length===0&&(!c||c.length===0))throw new Error("No updates provided. Must specify either 'updates', 'stepId'/'status', 'status' (top-level), or 'artifacts'.");let u=[];for(let m of d){let{stepId:f,status:h,contextPivot:b}=m,y=a.findById(t);if(!y)throw new Error(`Mission ID ${t} not found`);let g=JSON.parse(y.strategy_graph||"{}"),S=null;if(Array.isArray(g)?S=g.find(R=>R.id===f):g.nodes&&Array.isArray(g.nodes)?S=g.nodes.find(R=>R.id===f):g.steps?Array.isArray(g.steps)?S=g.steps.find(R=>R.id===f):S=g.steps[f]:g[f]&&(S=g[f]),!S)throw new Error(`Step ID "${f}" not found`);if(h==="completed"&&S.verification){let R=new Gn,w=Array.isArray(S.verification)?S.verification:[S.verification];for(let T of w){let v=T.filePath;if(v&&!Ro.isAbsolute(v)&&(v=Ro.join(e,v)),v){if(!qn.existsSync(v))throw new Error(`Verification failed: File not found at ${v}`);let k=await R.verify(qn.readFileSync(v,"utf8"),T);if(!k.passed)throw new Error(`Verification failed: ${k.errors.join("")}`)}else{let k=a.getWorkingSet(t),F=!1;for(let x of k){if(!qn.existsSync(x.file_path))continue;if((await R.verify(qn.readFileSync(x.file_path,"utf8"),T)).passed){F=!0;break}}if(!F)throw new Error(`Verification failed for rule "${T.target}" in working set.`)}}}if(S.status=h,a.update(t,{strategy_graph:JSON.stringify(g),commit_sha:p}),l.create({mission_id:t,type:"system",content:`Step "${f}" updated to "${h}"`,confidence:1,symbol_id:null,file_path:null,symbol_name:null,signature:null,commit_sha:p}),b)try{let R=JSON.parse(b);if(a.clearWorkingSet(t),R.files&&Array.isArray(R.files))for(let w of R.files)a.addToWorkingSet(t,w)}catch(R){bt.warn({error:R},"Failed to apply context pivot")}u.push({stepId:f,status:h})}try{await new ve(e).syncMissionToGitNotes(t)}catch(m){bt.warn({syncError:m,missionId:t},"Git Notes sync deferred")}return{content:[{type:"text",text:JSON.stringify({missionId:t,updates:u,artifacts_added:c?.length||0,message:"Status updated",commit:p},null,2)}]}}catch(d){throw bt.error({error:d,repoPath:e},"Failed to update status"),new Error(`Failed to update status: ${d instanceof Error?d.message:String(d)}`)}}P();var $o=_.child({module:"mcp:tools:ops:graph"});async function ko(i){let{repoPath:e,missionId:t,depth:n,limit:s,format:r="mermaid"}=i;$o.info({repoPath:e,missionId:t,format:r},"Generating mission graph");try{let{GraphExporterService:o}=await Promise.resolve().then(()=>(Co(),Io));return{content:[{type:"text",text:await new o(e).generateGraph({includeCompleted:!0,format:r,focusMissionId:t,depth:n,limit:s})}]}}catch(o){throw $o.error({error:o,repoPath:e},"Failed to generate mission graph"),new Error(`Failed to generate mission graph: ${o.message}`)}}U();P();var Bt=_.child({module:"mcp:tools:ops:log"});async function Lo(i){let{repoPath:e,missionId:t,type:n,content:s,filePath:r,symbolName:o}=i;Bt.info({repoPath:e,type:n,symbolName:o},"Logging intent");let{missions:c,exports:a,intentLogs:l}=C.getInstance(e);try{let p=t??null;if(p){if(!c.findById(p))throw new Error(`Mission ${p} not found. Use shadow_ops_briefing to see available missions.`)}else{let h=c.findActive();h.length>0?(p=h[0].id,Bt.debug({missionId:p},"Auto-resolved to active mission")):(p=null,Bt.debug("No active mission found, logging as system/unlinked intent"))}let d=null,u=null,m=o||null;if(o){let b=(r?a.findByNameAndFile(o,r):a.findByName(o))[0];b?(d=b.id,u=b.signature,m=b.name):Bt.warn({symbolName:o,filePath:r},"Symbol not found for intent linking")}let f=l.create({mission_id:p,symbol_id:d,file_path:r||null,type:n,content:s,confidence:1,symbol_name:m,signature:u,commit_sha:null});return{content:[{type:"text",text:JSON.stringify({logId:f,missionId:p,symbolId:d,status:"logged",message:d?`Intent linked to symbol "${o}"`:"Intent logged (unlinked)"},null,2)}]}}catch(p){throw Bt.error({error:p,repoPath:e},"Failed to log intent"),new Error(`Failed to log intent: ${p instanceof Error?p.message:String(p)}`)}}U();P();var No=_.child({module:"mcp:tools:ops:synthesize"});async function Ao(i){let{repoPath:e,missionId:t}=i;No.info({repoPath:e,missionId:t},"Synthesizing mission");let{missions:n}=C.getInstance(e);try{if(!n.findById(t))throw new Error(`Mission ${t} not found`);let o=await new Ge(e).distillMission(t);return{content:[{type:"text",text:JSON.stringify({missionId:t,adr:o.adr,metrics:o.metrics},null,2)}]}}catch(s){throw No.error({error:s,repoPath:e},"Failed to synthesize ADR"),new Error(`Failed to synthesize ADR: ${s instanceof Error?s.message:String(s)}`)}}import rl from"path";var V={...E,box:se,table:an,list:li};async function Mo(i){let[e,...t]=i;if(!e||!["plan","briefing","update","log","synthesize","graph"].includes(e)){console.log(""),console.log(`  ${V.bold("Usage: ")} liquid-shadow mission <action> [options]`),console.log(""),console.log(`  ${V.bold("Actions: ")}`),console.log(`    ${V.cyan("plan")} <repo> <name> <goal>      Plan a new mission`),console.log(`    ${V.cyan("update")} <repo> <id> <status>    Update mission status`),console.log(`    ${V.cyan("log")} <repo> <id> <type> <msg>   Log a mission discovery/intent`),console.log(`    ${V.cyan("briefing")} <repo> [--branch]     Get mission briefing`),console.log(`    ${V.cyan("synthesize")} <repo> <id>        Distill mission into ADR`),console.log(`    ${V.cyan("graph")} <repo> [id]             Generate mission lineage graph`),console.log("");return}await B(async()=>{let n=t[0]?rl.resolve(t[0]):process.cwd();switch(e){case"plan":{let[s,r,o]=t;if(!r||!o){console.error(`  ${V.red("\u2716")} Usage: mission plan <repo> <name> <goal>`);return}let c=await _o({repoPath:n,name:r,goal:o}),a=JSON.parse(c.content[0].text);console.log(`  ${V.green("\u2714")} Mission planned (ID: ${a.missionId})`);break}case"update":{let[s,r,o]=t;if(!r||!o){console.error(`  ${V.red("\u2716")} Usage: mission update <repo> <id> <status>`);return}await vo({repoPath:n,missionId:parseInt(r),status:o}),console.log(`  ${V.green("\u2714")} Status updated to ${o}`);break}case"log":{let[s,r,o,...c]=t;if(!r||!o||c.length===0){console.error(`  ${V.red("\u2716")} Usage: mission log <repo> <id> <type> <message>`);return}await Lo({repoPath:n,missionId:parseInt(r),type:o,content:c.join(" ")}),console.log(`  ${V.green("\u2714")} Intent logged`);break}case"synthesize":{let[s,r]=t;if(!r){console.error(`  ${V.red("\u2716")} Usage: mission synthesize <repo> <id>`);return}let o=await Ao({repoPath:n,missionId:parseInt(r)});console.log(""),V.box("Mission Synthesis (ADR)",o.content[0].text,"magenta");break}case"graph":{let[s,r]=t,o=await ko({repoPath:n,missionId:r?parseInt(r):void 0,format:"mermaid"});console.log(""),console.log(o.content[0].text);break}case"briefing":{let s=await xo({repoPath:n});if(s.content&&s.content[0]){let r=s.content[0].text;try{let o=JSON.parse(r);if(o.mission){console.log(""),console.log(V.bold(V.cyan(` Mission Dashboard: ${o.mission.name} `))),V.box("Tactical Goal",o.mission.goal,"cyan");let c=o.mission.status==="completed"?"green":o.mission.status==="failed"?"red":"yellow",a=[["Status",V.bold(V[c](o.mission.status.toUpperCase()))],["ID",`#${o.mission.id}`],["Branch",o.mission.git_branch||"main"]];V.table(["Field","Value"],a),o.recent_activity&&o.recent_activity.length>0&&(console.log(`  ${V.bold("Recent Activity:")}`),V.list(o.recent_activity.slice(0,5).map(l=>`${V.dim(`[${l.type.toUpperCase()}]`)} ${l.content}`)))}else console.log(r)}catch{console.log(r)}}break}}})}import Ds from"path";async function Po(i){let[e,...t]=i;if(!e||!["symbol","file"].includes(e)){console.log(""),console.log(`  ${E.bold("Usage: ")} liquid-shadow inspect <symbol|file> [options]`),console.log(""),console.log(`  ${E.bold("Actions: ")}`),console.log(`    ${E.cyan("symbol")} <repo> <name>    Read source code for a symbol`),console.log(`    ${E.cyan("file")} <repo> <path>     Get a token-efficient file summary`),console.log("");return}await B(async()=>{let n=t[0]?Ds.resolve(t[0]):process.cwd();if(e==="symbol"){let s=t[1];if(!s){console.error(`  ${E.red("\u2716")} Please provide a symbol name`);return}let r=await gt({repoPath:n,symbolName:s});console.log(""),r.content&&r.content[0]&&console.log(r.content[0].text)}else{let s=t[1];if(!s){console.error(`  ${E.red("\u2716")} Please provide a file path`);return}let r=Ds.isAbsolute(s)?s:Ds.join(n,s),o=await Mn({repoPath:n,filePath:r});console.log(""),o.content&&o.content[0]&&console.log(o.content[0].text)}})}var Do=["index","status","metrics","benchmark","tree","trace","watch","search-config","search-concept","search-symbol","search-fuzzy","hooks","workspace","mission","inspect","completion"],ol=["--help","-h","--version","-v","--dir","-d"],al={index:["--output","-o","--level","-l","--subPath","--force","--deep"],tree:["--subPath","--depth","-d"],trace:["--dir","-d"],"search-config":["--dir","-d","--kind"],"search-concept":["--dir","-d","--interactive","-i"],"search-symbol":["--dir","-d","--interactive","-i"],"search-fuzzy":["--dir","-d","--interactive","-i"]};function cl(){let i=Object.entries(al).map(([n,s])=>`    ${n}) opts="${s.join(" ")}" ;;`).join(`
-`),e=Do.join(" ");return`# Bash completion for liquid-shadow. Usage: source <(liquid-shadow completion bash)
+*Generated by Liquid Shadow Reasoning Engine v1*`,t){this.intentLogs.create({mission_id:e,type:"adr",content:o,confidence:1,symbol_id:null,file_path:null,symbol_name:null,signature:null,commit_sha:null});try{await this.persistencePivot.syncMissionToGitNotes(e),os.info({missionId:e},"Tactical Briefing synthesized, archived, and synced to Git Notes.")}catch(c){os.error({missionId:e,error:c},"Failed to sync ADR to Git Notes")}}else os.info({missionId:e},"Tactical Briefing synthesized (dry-run).");return{missionId:e,adr:o,metrics:{totalLogs:n.length,symbolCount:r.size}}}gatherConsolidatedLogs(e,t=0){let n=this.intentLogs.findByMissionPreferCrystal(e,500);if(t>2)return n;let s=this.missions.findByParentId(e);for(let r of s)n.push(...this.gatherConsolidatedLogs(r.id,t+1));return n.filter(r=>r.type!=="adr"&&r.type!=="system")}};W();import{Visitor as Wl}from"@swc/core/Visitor.js";import*as Go from"@swc/core";var Hl=S.child({module:"verification-engine"}),Ks=class extends Wl{foundUsage=!1;foundImport=!1;rule;currentFunctionName=null;constructor(e){super(),this.rule=e}visitImportDeclaration(e){return this.rule.type==="import"&&e.source.value===this.rule.target&&(this.foundImport=!0),super.visitImportDeclaration(e)}visitFunctionDeclaration(e){let t=this.currentFunctionName;this.currentFunctionName=e.identifier.value;let n=super.visitFunctionDeclaration(e);return this.currentFunctionName=t,n}visitCallExpression(e){return this.rule.type==="usage"&&e.callee.type==="Identifier"&&e.callee.value===this.rule.target&&(!this.rule.context||this.currentFunctionName===this.rule.context)&&(this.foundUsage=!0),super.visitCallExpression(e)}},as=class{async verify(e,t){try{let n=await Go.parse(e,{syntax:"typescript",tsx:!0,comments:!1}),s=new Ks(t);s.visitProgram(n);let r=!1,o=[];if(t.type==="import")r=s.foundImport,r||o.push(`Required import "${t.target}" not found.`);else if(t.type==="usage"){if(r=s.foundUsage,!r){let c=t.context?` in function "${t.context}"`:"";o.push(`Required usage of "${t.target}"${c} not found.`)}}else t.type==="pattern"&&(r=new RegExp(t.target).test(e),r||o.push(`Required pattern "${t.target}" not found.`));return{passed:r,errors:o}}catch(n){return Hl.error({error:n},"Verification failed due to parse error"),{passed:!1,errors:[`Parse error: ${n.message}`]}}}};import qo from"path";import cs from"fs";var De=S.child({module:"mcp:tools:ops:track"});async function Jo(i,e,t){let{missions:n,intentLogs:s}=C.getInstance(i),r=n.findById(e);if(!r?.parent_id)return;let o=n.findByParentId(r.parent_id);if(!o.every(l=>l.status==="completed"))return;let a=n.findById(r.parent_id);if(!(!a||a.status==="completed")){De.info({parentId:a.id,childCount:o.length},"All children completed \u2014 cascading parent completion"),n.updateStatus(a.id,"completed",t||void 0),s.create({mission_id:a.id,type:"system",content:`Parent auto-completed: all ${o.length} child missions finished`,confidence:1,symbol_id:null,file_path:null,symbol_name:null,signature:null,commit_sha:t});try{await new ze(i).distillMission(a.id),De.info({parentId:a.id},"Parent Auto-Synthesis completed")}catch(l){De.warn({synthesisError:l,parentId:a.id},"Parent Auto-Synthesis deferred")}try{await new Re(i).syncMissionToGitNotes(a.id)}catch(l){De.warn({syncError:l,parentId:a.id},"Parent Git Notes sync deferred")}await Jo(i,a.id,t)}}async function Yo(i){let{repoPath:e,missionId:t,stepId:n,status:s,contextPivot:r,updates:o,artifacts:c}=i,{missions:a,intentLogs:l}=C.getInstance(e),p=xe(e);De.info({repoPath:e,missionId:t,singleStep:n,batchCount:o?.length,artifactCount:c?.length},"Updating mission status");try{if(c&&Array.isArray(c))for(let m of c)a.addArtifact(t,m.type,m.identifier,m.metadata);let u=[];if(o&&Array.isArray(o)&&u.push(...o),n&&s&&u.push({stepId:n,status:s,contextPivot:r}),s&&!n){if(a.updateStatus(t,s,p||void 0),l.create({mission_id:t,type:"system",content:`Mission status changed to "${s}"`,confidence:1,symbol_id:null,file_path:null,symbol_name:null,signature:null,commit_sha:p}),s==="completed"){try{await new ze(e).distillMission(t),De.info({missionId:t},"Auto-Synthesis completed successfully")}catch(m){De.warn({synthesisError:m,missionId:t},"Auto-Synthesis deferred or failed")}await Jo(e,t,p)}if(!u.length)return{content:[{type:"text",text:JSON.stringify({missionId:t,status:s,message:"Mission status updated successfully.",artifacts_added:c?.length||0,commit:p},null,2)}]}}if(u.length===0&&(!c||c.length===0))throw new Error("No updates provided. Must specify either 'updates', 'stepId'/'status', 'status' (top-level), or 'artifacts'.");let d=[];for(let m of u){let{stepId:h,status:g,contextPivot:_}=m,b=a.findById(t);if(!b)throw new Error(`Mission ID ${t} not found`);let y=JSON.parse(b.strategy_graph||"{}"),E=null;if(Array.isArray(y)?E=y.find(w=>w.id===h):y.nodes&&Array.isArray(y.nodes)?E=y.nodes.find(w=>w.id===h):y.steps?Array.isArray(y.steps)?E=y.steps.find(w=>w.id===h):E=y.steps[h]:y[h]&&(E=y[h]),!E)throw new Error(`Step ID "${h}" not found`);if(g==="completed"&&E.verification){let w=new as,x=Array.isArray(E.verification)?E.verification:[E.verification];for(let v of x){let k=v.filePath;if(k&&!qo.isAbsolute(k)&&(k=qo.join(e,k)),k){if(!cs.existsSync(k))throw new Error(`Verification failed: File not found at ${k}`);let N=await w.verify(cs.readFileSync(k,"utf8"),v);if(!N.passed)throw new Error(`Verification failed: ${N.errors.join("")}`)}else{let N=a.getWorkingSet(t),O=!1;for(let T of N){if(!cs.existsSync(T.file_path))continue;if((await w.verify(cs.readFileSync(T.file_path,"utf8"),v)).passed){O=!0;break}}if(!O)throw new Error(`Verification failed for rule "${v.target}" in working set.`)}}}if(E.status=g,a.update(t,{strategy_graph:JSON.stringify(y),commit_sha:p}),l.create({mission_id:t,type:"system",content:`Step "${h}" updated to "${g}"`,confidence:1,symbol_id:null,file_path:null,symbol_name:null,signature:null,commit_sha:p}),_)try{let w=JSON.parse(_);if(a.clearWorkingSet(t),w.files&&Array.isArray(w.files))for(let x of w.files)a.addToWorkingSet(t,x)}catch(w){De.warn({error:w},"Failed to apply context pivot")}d.push({stepId:h,status:g})}try{await new Re(e).syncMissionToGitNotes(t)}catch(m){De.warn({syncError:m,missionId:t},"Git Notes sync deferred")}return{content:[{type:"text",text:JSON.stringify({missionId:t,updates:d,artifacts_added:c?.length||0,message:"Status updated",commit:p},null,2)}]}}catch(u){throw De.error({error:u,repoPath:e},"Failed to update status"),new Error(`Failed to update status: ${u instanceof Error?u.message:String(u)}`)}}W();var Xo=S.child({module:"mcp:tools:ops:graph"});async function Zo(i){let{repoPath:e,missionId:t,depth:n,limit:s,format:r="mermaid"}=i;Xo.info({repoPath:e,missionId:t,format:r},"Generating mission graph");try{let{GraphExporterService:o}=await Promise.resolve().then(()=>(Ko(),Qo));return{content:[{type:"text",text:await new o(e).generateGraph({includeCompleted:!0,format:r,focusMissionId:t,depth:n,limit:s})}]}}catch(o){throw Xo.error({error:o,repoPath:e},"Failed to generate mission graph"),new Error(`Failed to generate mission graph: ${o.message}`)}}z();W();var rn=S.child({module:"mcp:tools:ops:log"});async function ea(i){let{repoPath:e,missionId:t,type:n,content:s,filePath:r,symbolName:o}=i;rn.info({repoPath:e,type:n,symbolName:o},"Logging intent");let{missions:c,exports:a,intentLogs:l}=C.getInstance(e);try{let p=t??null;if(p){if(!c.findById(p))throw new Error(`Mission ${p} not found. Use shadow_ops_briefing to see available missions.`)}else{let g=c.findActive();g.length>0?(p=g[0].id,rn.debug({missionId:p},"Auto-resolved to active mission")):(p=null,rn.debug("No active mission found, logging as system/unlinked intent"))}let u=null,d=null,m=o||null;if(o){let _=(r?a.findByNameAndFile(o,r):a.findByName(o))[0];_?(u=_.id,d=_.signature,m=_.name):rn.warn({symbolName:o,filePath:r},"Symbol not found for intent linking")}let h=l.create({mission_id:p,symbol_id:u,file_path:r||null,type:n,content:s,confidence:1,symbol_name:m,signature:d,commit_sha:null});return{content:[{type:"text",text:JSON.stringify({logId:h,missionId:p,symbolId:u,status:"logged",message:u?`Intent linked to symbol "${o}"`:"Intent logged (unlinked)"},null,2)}]}}catch(p){throw rn.error({error:p,repoPath:e},"Failed to log intent"),new Error(`Failed to log intent: ${p instanceof Error?p.message:String(p)}`)}}z();W();var ta=S.child({module:"mcp:tools:ops:synthesize"});async function na(i){let{repoPath:e,missionId:t}=i;ta.info({repoPath:e,missionId:t},"Synthesizing mission");let{missions:n}=C.getInstance(e);try{if(!n.findById(t))throw new Error(`Mission ${t} not found`);let o=await new ze(e).distillMission(t);return{content:[{type:"text",text:JSON.stringify({missionId:t,adr:o.adr,metrics:o.metrics},null,2)}]}}catch(s){throw ta.error({error:s,repoPath:e},"Failed to synthesize ADR"),new Error(`Failed to synthesize ADR: ${s instanceof Error?s.message:String(s)}`)}}import Ul from"path";var Q={...f,box:X,table:Tn,list:Mi};async function sa(i){let[e,...t]=i;if(!e||!["plan","briefing","update","log","synthesize","graph"].includes(e)){console.log(""),console.log(`  ${Q.bold("Usage: ")} liquid-shadow mission <action> [options]`),console.log(""),console.log(`  ${Q.bold("Actions: ")}`),console.log(`    ${Q.cyan("plan")} <repo> <name> <goal>      Plan a new mission`),console.log(`    ${Q.cyan("update")} <repo> <id> <status>    Update mission status`),console.log(`    ${Q.cyan("log")} <repo> <id> <type> <msg>   Log a mission discovery/intent`),console.log(`    ${Q.cyan("briefing")} <repo> [--branch]     Get mission briefing`),console.log(`    ${Q.cyan("synthesize")} <repo> <id>        Distill mission into ADR`),console.log(`    ${Q.cyan("graph")} <repo> [id]             Generate mission lineage graph`),console.log("");return}await B(async()=>{let n=t[0]?Ul.resolve(t[0]):process.cwd();switch(e){case"plan":{let[s,r,o]=t;if(!r||!o){console.error(`  ${Q.red("\u2716")} Usage: mission plan <repo> <name> <goal>`);return}let c=await zo({repoPath:n,name:r,goal:o}),a=JSON.parse(c.content[0].text);console.log(`  ${Q.green("\u2714")} Mission planned (ID: ${a.missionId})`);break}case"update":{let[s,r,o]=t;if(!r||!o){console.error(`  ${Q.red("\u2716")} Usage: mission update <repo> <id> <status>`);return}await Yo({repoPath:n,missionId:parseInt(r),status:o}),console.log(`  ${Q.green("\u2714")} Status updated to ${o}`);break}case"log":{let[s,r,o,...c]=t;if(!r||!o||c.length===0){console.error(`  ${Q.red("\u2716")} Usage: mission log <repo> <id> <type> <message>`);return}await ea({repoPath:n,missionId:parseInt(r),type:o,content:c.join(" ")}),console.log(`  ${Q.green("\u2714")} Intent logged`);break}case"synthesize":{let[s,r]=t;if(!r){console.error(`  ${Q.red("\u2716")} Usage: mission synthesize <repo> <id>`);return}let o=await na({repoPath:n,missionId:parseInt(r)});console.log(""),Q.box("Mission Synthesis (ADR)",o.content[0].text,"magenta");break}case"graph":{let[s,r]=t,o=await Zo({repoPath:n,missionId:r?parseInt(r):void 0,format:"mermaid"});console.log(""),console.log(o.content[0].text);break}case"briefing":{let s=await Bo({repoPath:n});if(s.content&&s.content[0]){let r=s.content[0].text;try{let o=JSON.parse(r);if(o.mission){console.log(""),console.log(Q.bold(Q.cyan(` Mission Dashboard: ${o.mission.name} `))),Q.box("Tactical Goal",o.mission.goal,"cyan");let c=o.mission.status==="completed"?"green":o.mission.status==="failed"?"red":"yellow",a=[["Status",Q.bold(Q[c](o.mission.status.toUpperCase()))],["ID",`#${o.mission.id}`],["Branch",o.mission.git_branch||"main"]];Q.table(["Field","Value"],a),o.recent_activity&&o.recent_activity.length>0&&(console.log(`  ${Q.bold("Recent Activity:")}`),Q.list(o.recent_activity.slice(0,5).map(l=>`${Q.dim(`[${l.type.toUpperCase()}]`)} ${l.content}`)))}else console.log(r)}catch{console.log(r)}}break}}})}import Zs from"path";async function ia(i){let[e,...t]=i;if(!e||!["symbol","file"].includes(e)){console.log(""),console.log(`  ${f.bold("Usage: ")} liquid-shadow inspect <symbol|file> [options]`),console.log(""),console.log(`  ${f.bold("Actions: ")}`),console.log(`    ${f.cyan("symbol")} <repo> <name>    Read source code for a symbol`),console.log(`    ${f.cyan("file")} <repo> <path>     Get a token-efficient file summary`),console.log("");return}await B(async()=>{let n=t[0]?Zs.resolve(t[0]):process.cwd();if(e==="symbol"){let s=t[1];if(!s){console.error(`  ${f.red("\u2716")} Please provide a symbol name`);return}let r=await Lt({repoPath:n,symbolName:s});console.log(""),r.content&&r.content[0]&&console.log(r.content[0].text)}else{let s=t[1];if(!s){console.error(`  ${f.red("\u2716")} Please provide a file path`);return}let r=Zs.isAbsolute(s)?s:Zs.join(n,s),o=await Qn({repoPath:n,filePath:r});console.log(""),o.content&&o.content[0]&&console.log(o.content[0].text)}})}var ra=["index","status","metrics","benchmark","tree","trace","watch","search-config","search-concept","search-symbol","search-fuzzy","hooks","workspace","mission","inspect","completion"],jl=["--help","-h","--version","-v","--dir","-d"],zl={index:["--output","-o","--level","-l","--subPath","--force","--deep"],tree:["--subPath","--depth","-d"],trace:["--dir","-d"],"search-config":["--dir","-d","--kind"],"search-concept":["--dir","-d","--interactive","-i"],"search-symbol":["--dir","-d","--interactive","-i"],"search-fuzzy":["--dir","-d","--interactive","-i"]};function Bl(){let i=Object.entries(zl).map(([n,s])=>`    ${n}) opts="${s.join(" ")}" ;;`).join(`
+`),e=ra.join(" ");return`# Bash completion for liquid-shadow. Usage: source <(liquid-shadow completion bash)
 _liquid_shadow() {
   local cur="\${COMP_WORDS[COMP_CWORD]}"
   local words=("\${COMP_WORDS[@]}")
@@ -821,7 +849,7 @@ _liquid_shadow() {
     if [[ "\${words[$i]}" != -* ]]; then cmd="\${words[$i]}"; break; fi
     ((i++))
   done
-  local opts="${ol.join(" ")}"
+  local opts="${jl.join(" ")}"
   if [ -n "$cmd" ]; then
     case "$cmd" in
 ${i}
@@ -833,11 +861,11 @@ ${i}
   COMPREPLY=($(compgen -W "$opts" -- "$cur"))
 }
 complete -F _liquid_shadow liquid-shadow
-`}function ll(){return`# Zsh completion for liquid-shadow. Usage: source <(liquid-shadow completion zsh)
+`}function Gl(){return`# Zsh completion for liquid-shadow. Usage: source <(liquid-shadow completion zsh)
 # Run after compinit (e.g. in .zshrc after compinit)
 
 _liquid_shadow() {
-  local -a cmds; cmds=(${Do.map(e=>`'${e}'`).join(" ")})
+  local -a cmds; cmds=(${ra.map(e=>`'${e}'`).join(" ")})
   if [ $CURRENT -eq 2 ]; then
     _describe 'command' cmds
     return
@@ -854,7 +882,7 @@ _liquid_shadow() {
   _describe 'flag' fl
 }
 compdef _liquid_shadow liquid-shadow
-`}async function Oo(i){i==="bash"?console.log(cl()):i==="zsh"?console.log(ll()):(console.error("Usage: liquid-shadow completion <bash|zsh>"),console.error("Then: source <(liquid-shadow completion bash)  # or zsh"),process.exit(1))}import pl from"fs";import ul from"path";var dl=2e3;async function Fo(i){let e=ul.resolve(i);await B(async()=>{le("Watch mode");let t=Ce(e),n=null,s=()=>{n&&clearTimeout(n),n=setTimeout(async()=>{n=null;try{console.log(""),console.log(E.dim("  Changes detected, reindexing...")),await z(e,5,!1,!0),console.log(E.green("  Reindex complete."))}catch(r){console.error(E.red("  Reindex failed:"),r instanceof Error?r.message:r)}},dl)};try{pl.watch(e,{recursive:!0},(r,o)=>{o&&!o.includes("node_modules")&&s()}),console.log(E.cyan(`  Watching ${e}`)),console.log(E.dim("  Ignore: "+(t.ignore?.length?t.ignore.join(", "):"default"))),Tt("Ctrl+C to stop"),await new Promise((r,o)=>{process.on("SIGINT",()=>o(new Error("SIGINT"))),process.on("SIGTERM",()=>o(new Error("SIGTERM")))}).catch(()=>{})}finally{n&&clearTimeout(n),await q(e)}})}U();P();var ml=_.child({module:"narrative-service"}),Jn=class{missions;briefingEngine;repoPath;constructor(e){this.repoPath=e;let{missions:t}=C.getInstance(e);this.missions=t,this.briefingEngine=new Ge(e)}async generateChronicle(e={}){ml.info(e,"Generating Repo Chronicle...");let n=this.missions.findAll().filter(l=>l.parent_id===null&&l.status!=="planned");e.since&&(n=n.filter(l=>l.updated_at>=e.since)),e.until&&(n=n.filter(l=>l.updated_at<=e.until)),n.sort((l,p)=>p.updated_at-l.updated_at);let s=e.offset||0,r=e.limit||10;n=n.slice(s,s+r);let o=[],c=[],a=[];for(let l of n){let p=this.missions.findByParentId(l.id),d=p.length>0,u=await this.briefingEngine.distillMission(l.id,!1);if(d){let m=[];for(let h of p)m.push(await this.mapMissionToEpisode(h));m.unshift(await this.mapMissionToEpisode(l));let f={kind:"initiative",root_mission_id:l.id,title:l.name,strategy_graph:l.strategy_graph?JSON.parse(l.strategy_graph):{},episodes:m,synthesized_narrative:u.adr};o.push(f),a.push(f)}else{let m=await this.mapMissionToEpisode(l,u.adr);c.push(m),a.push(m)}}return{repo_path:this.repoPath,generated_at:Date.now(),initiatives:o,unattached_episodes:c,timeline:a}}async mapMissionToEpisode(e,t){let n=t;return n||(n=(await this.briefingEngine.distillMission(e.id,!1)).adr),{kind:"episode",mission_id:e.id,title:e.name,goal:e.goal,outcome:e.outcome_contract,intents:[],adr_summary:n}}renderChronicleMarkdown(e){let t=`# Repository Chronicle
+`}async function oa(i){i==="bash"?console.log(Bl()):i==="zsh"?console.log(Gl()):(console.error("Usage: liquid-shadow completion <bash|zsh>"),console.error("Then: source <(liquid-shadow completion bash)  # or zsh"),process.exit(1))}import ql from"fs";import Jl from"path";var Yl=2e3;async function aa(i){let e=Jl.resolve(i);await B(async()=>{se("Watch mode");let t=Oe(e),n=null,s=()=>{n&&clearTimeout(n),n=setTimeout(async()=>{n=null;try{console.log(""),console.log(f.dim("  Changes detected, reindexing...")),await G(e,5,!1,!0),console.log(f.green("  Reindex complete."))}catch(r){console.error(f.red("  Reindex failed:"),r instanceof Error?r.message:r)}},Yl)};try{ql.watch(e,{recursive:!0},(r,o)=>{o&&!o.includes("node_modules")&&s()}),console.log(f.cyan(`  Watching ${e}`)),console.log(f.dim("  Ignore: "+(t.ignore?.length?t.ignore.join(", "):"default"))),Ee("Ctrl+C to stop"),await new Promise((r,o)=>{process.on("SIGINT",()=>o(new Error("SIGINT"))),process.on("SIGTERM",()=>o(new Error("SIGTERM")))}).catch(()=>{})}finally{n&&clearTimeout(n),await J(e)}})}z();W();var Vl=S.child({module:"narrative-service"}),ls=class{missions;briefingEngine;repoPath;constructor(e){this.repoPath=e;let{missions:t}=C.getInstance(e);this.missions=t,this.briefingEngine=new ze(e)}async generateChronicle(e={}){Vl.info(e,"Generating Repo Chronicle...");let n=this.missions.findAll().filter(l=>l.parent_id===null&&l.status!=="planned");e.since&&(n=n.filter(l=>l.updated_at>=e.since)),e.until&&(n=n.filter(l=>l.updated_at<=e.until)),n.sort((l,p)=>p.updated_at-l.updated_at);let s=e.offset||0,r=e.limit||10;n=n.slice(s,s+r);let o=[],c=[],a=[];for(let l of n){let p=this.missions.findByParentId(l.id),u=p.length>0,d=await this.briefingEngine.distillMission(l.id,!1);if(u){let m=[];for(let g of p)m.push(await this.mapMissionToEpisode(g));m.unshift(await this.mapMissionToEpisode(l));let h={kind:"initiative",root_mission_id:l.id,title:l.name,strategy_graph:l.strategy_graph?JSON.parse(l.strategy_graph):{},episodes:e.compact?[]:m,synthesized_narrative:e.compact?this.truncateText(d.adr):d.adr||""};o.push(h),a.push(h)}else{let m=await this.mapMissionToEpisode(l,d.adr,e.compact);c.push(m),a.push(m)}}return{repo_path:this.repoPath,generated_at:Date.now(),initiatives:o,unattached_episodes:c,timeline:a}}async mapMissionToEpisode(e,t,n=!1){let s=t;return s||(s=(await this.briefingEngine.distillMission(e.id,!1)).adr),{kind:"episode",mission_id:e.id,title:e.name,goal:e.goal,outcome:e.outcome_contract,intents:[],adr_summary:n?this.truncateText(s):s}}truncateText(e,t=300){return e?e.length<=t?e:e.slice(0,t)+"... (truncated)":""}renderChronicleMarkdown(e){let t=`# Repository Chronicle
 
 `;if(t+=`*Generated at ${new Date(e.generated_at).toISOString()}*
 
@@ -865,4 +893,261 @@ compdef _liquid_shadow liquid-shadow
 `,t+=`${n.adr_summary}
 
 `),t+=`---
-`;return t}};P();import hl from"path";async function Ho(i,e){let t=hl.resolve(i||process.cwd()),n=e.format==="json"?"json":"markdown",s=_.child({module:"cli:chronicle",repoPath:t});s.info("Generating repository chronicle...");try{let r=new Jn(t),o=await r.generateChronicle({limit:e.limit,offset:e.offset,since:e.since,until:e.until});console.log(n==="json"?JSON.stringify(o,null,2):r.renderChronicleMarkdown(o))}catch(r){s.error({error:r},"Failed to generate chronicle"),console.error(`Error: ${r instanceof Error?r.message:String(r)}`),process.exit(1)}}function ce(i){let e=process.cwd();return js(e,i.flags)}process.on("unhandledRejection",i=>{console.error("\x1B[31mUnhandled Rejection:\x1B[0m",i),q().then(()=>process.exit(1))});process.on("uncaughtException",i=>{console.error("\x1B[31mUncaught Exception:\x1B[0m",i),q().then(()=>process.exit(1))});var ee=fl().name("liquid-shadow").version("1.0.2").description("Tactical Repository Intelligence Operative - Liquid Shadow Ecosystem").scriptName("liquid-shadow");ee.command("index","Index the repository for AI analysis",{parameters:["[dir]"],flags:{output:{type:String,alias:"o",description:"Export to JSON file instead of indexing"},level:{type:String,alias:"l",description:"Detail level",default:"detailed"},subPath:{type:String,description:"Only process files within this subpath"},force:{type:Boolean,description:"Force re-indexing of all files",default:!1},deep:{type:Boolean,description:"Perform deep semantic indexing (headings + symbol embeddings)",default:!0}}}).on("index",async i=>{let e=ce(i),t={...i.flags,dir:i.flags.dir??e.dir,level:i.flags.level??e.level,deep:i.flags.deep??e.deep};t.deep==="false"||t.deep===!1?t.deep=!1:t.deep=!0,await or(i.parameters.dir||e.dir,t)});ee.command("status","Show current repository intelligence status",{parameters:["[dir]"]}).on("status",async i=>{let e=ce(i);await Ei(i.parameters.dir||e.dir)});ee.command("metrics","Show performance metrics and observability data",{parameters:["[dir]"]}).on("metrics",async i=>{let e=ce(i);await wi(i.parameters.dir||e.dir)});ee.command("benchmark","Run performance benchmark on repository indexing",{parameters:["[dir]"]}).on("benchmark",async i=>{let e=ce(i);await cr(i.parameters.dir||e.dir)});ee.command("tree","Visualize repository structure as a tree",{parameters:["[dir]"],flags:{subPath:{type:String,description:"Subpath to visualize"},depth:{type:String,alias:"d",description:"Max depth",default:"3"}}}).on("tree",async i=>{let e=ce(i);await sr(i.parameters.dir||e.dir,{...i.flags,dir:i.flags.dir??e.dir})});ee.command("recon","Repository reconnaissance and architecture analysis",{parameters:["<mode>","[dir]"],flags:{subPath:{type:String,description:"Subpath to focus on"}}}).on("recon",async i=>{let e=ce(i);await Yr(i.parameters.mode,i.parameters.dir||e.dir,{...i.flags})});ee.command("trace","Trace execution flow for a given file/symbol",{parameters:["<file>","[symbolName]"],flags:{dir:{type:String,alias:"d",default:"."}}}).on("trace",async i=>{let e=ce(i);await dr(i.parameters.file,{...i.flags,dir:i.flags.dir??e.dir,symbolName:i.parameters.symbolName})});ee.command("sync","Deep synchronize intelligence lifecycle (Trace + Repair + Re-hydrate)",{parameters:["[dir]"]}).on("sync",async i=>{let e=ce(i);await Gr(i.parameters.dir||e.dir,{})});ee.command("search-config","Search for configuration values",{parameters:["[key]"],flags:{dir:{type:String,alias:"d",default:"."},kind:{type:String,description:"Filter by config kind"}}}).on("search-config",async i=>{let e=ce(i);await ro(i.parameters.key,{...i.flags,dir:i.flags.dir??e.dir})});ee.command("search-concept","Search for files by concept/intent (Semantic)",{parameters:["<query>"],flags:{dir:{type:String,alias:"d",default:"."},interactive:{type:Boolean,alias:"i",description:"Interactive TUI: pick a result to inspect",default:!1}}}).on("search-concept",async i=>{let e=ce(i);await no(i.parameters.query,{...i.flags,dir:i.flags.dir??e.dir})});ee.command("search-symbol","Search for specific code symbols",{parameters:["<query>"],flags:{dir:{type:String,alias:"d",default:"."},interactive:{type:Boolean,alias:"i",description:"Interactive TUI: pick a result to inspect",default:!1}}}).on("search-symbol",async i=>{let e=ce(i);await so(i.parameters.query,{...i.flags,dir:i.flags.dir??e.dir})});ee.command("search-fuzzy",'Fuzzy search for symbols (e.g., "usc" finds "UserServiceClient")',{parameters:["<query>"],flags:{dir:{type:String,alias:"d",default:"."},interactive:{type:Boolean,alias:"i",description:"Interactive TUI: pick a result to inspect",default:!1}}}).on("search-fuzzy",async i=>{let e=ce(i);await io(i.parameters.query,{...i.flags,dir:i.flags.dir??e.dir})});ee.command("hooks","Manage git hooks for automatic intelligence updates",{parameters:["<action>","[path]"]}).on("hooks",async i=>{await oo([i.parameters.action,i.parameters.path])});ee.command("workspace","Workspace-level mission orchestration",{parameters:["<action>","[args...]"]}).on("workspace",async i=>{await yo([i.parameters.action,...i.parameters.args])});ee.command("mission","Mission management (start, plan, briefing, distill)",{parameters:["<action>","[args...]"]}).on("mission",async i=>{await Mo([i.parameters.action,...i.parameters.args])});ee.command("inspect","Deep inspection of specific files or symbols",{parameters:["<mode>","[args...]"]}).on("inspect",async i=>{await Po([i.parameters.mode,...i.parameters.args])});ee.command("watch","Watch repo and reindex on file changes",{parameters:["[dir]"]}).on("watch",async i=>{let e=ce(i);await Fo(i.parameters.dir||e.dir)});ee.command("chronicle","Generate a repository-wide narrative feed (ADRs/Epics)",{parameters:["[dir]"],flags:{format:{type:String,alias:"f",description:"Output format (markdown|json)",default:"markdown"},limit:{type:Number,alias:"l",description:"Limit number of entries",default:10},offset:{type:Number,description:"Pagination offset",default:0},since:{type:String,description:"Show entries since date (YYYY-MM-DD)"},until:{type:String,description:"Show entries until date (YYYY-MM-DD)"}}}).on("chronicle",async i=>{let e=ce(i);await Ho(i.parameters.dir||e.dir,{...i.flags,format:i.flags.format,limit:i.flags.limit?parseInt(String(i.flags.limit),10):void 0,offset:i.flags.offset?parseInt(String(i.flags.offset),10):void 0,since:i.flags.since?Math.floor(new Date(String(i.flags.since)).getTime()/1e3):void 0,until:i.flags.until?Math.floor(new Date(String(i.flags.until)).getTime()/1e3):void 0})});ee.command("completion","Generate shell completion script (bash or zsh)",{parameters:["<shell>"]}).on("completion",async i=>{await Oo(i.parameters.shell||"")});ee.parse();
+`;return t}};W();import Ql from"path";async function ca(i,e){let t=Ql.resolve(i||process.cwd()),n=e.format==="json"?"json":"markdown",s=S.child({module:"cli:chronicle",repoPath:t});s.info("Generating repository chronicle...");try{let r=new ls(t),o=await r.generateChronicle({limit:e.limit,offset:e.offset,since:e.since,until:e.until});console.log(n==="json"?JSON.stringify(o,null,2):r.renderChronicleMarkdown(o))}catch(r){s.error({error:r},"Failed to generate chronicle"),console.error(`Error: ${r instanceof Error?r.message:String(r)}`),process.exit(1)}}import Ie from"fs";import st from"path";import Kl from"os";var ei={shadow_audit:'---\nname: audit\ndescription: Perform codebase health audits to identify dead code, circular dependencies, and technical debt. Use when auditing code quality, finding unused code, detecting circular dependencies, or when the user asks about codebase health, technical debt, or code cleanup.\n---\n\n# Codebase Audit\n\nComprehensive health audit using Shadow analyze toolkit.\n\n## \u{1F680} Workflow\n\n1. **Session Context**: `shadow_ops_context` (repoPath) \u2014 **ONE CALL** for hologram + chronicle + briefing. Get architecture baseline.\n2. **Dead Code Detection**: `shadow_analyze_debt` (mode: "dead-code", limit: 100, includeTests: false, repoPath) \u2014 Unused exports.\n3. **Circular Dependencies**: `shadow_analyze_debt` (mode: "circular-deps", limit: 20, repoPath) \u2014 Import cycles.\n4. **Layer Integrity** (optional): `shadow_recon_topography` (repoPath) \u2014 Detailed layer analysis if hologram summary isn\'t enough.\n5. **Log Findings**: `shadow_ops_log` (missionId, type: "discovery", content, repoPath).\n6. **Create Cleanup Mission** (optional): `shadow_ops_plan` (name: "Codebase Cleanup", templateId: "refactoring", templateVars, repoPath).\n\n## \u{1F6E0} Precise Tooling\n\n| Audit Target | Atomic Tool |\n| :--- | :--- |\n| **Session Start** \u{1F680} | `shadow_ops_context` (repoPath) \u2014 **START HERE** for baseline |\n| **Architecture** | `shadow_recon_hologram` (repoPath) \u2014 if you need standalone |\n| **Dead Code** | `shadow_analyze_debt` (mode: "dead-code", limit: 100, **confidenceThreshold: "high"**) |\n| **Circular Deps** | `shadow_analyze_debt` (mode: "circular-deps") |\n| **Layers** | `shadow_recon_topography` \u2014 detailed breakdown if needed |\n| **Config Audit** | `shadow_search_config` (kind: "Env", **showUsage: true**) \u2014 find orphaned env vars |\n\n## \u{1F4A1} Intelligence Options\n\n- **`shadow_analyze_debt` confidence levels**: Use `confidenceThreshold: "high"` for likely dead code, `"medium"` for possibly intentional (test fixtures, etc.), `"all"` for everything.\n- **`shadow_analyze_debt` exclusion filters**: Use `excludePatterns`, `includeMigrations: false`, `includeFixtures: false` to reduce noise.\n- **`shadow_search_config` with `showUsage: true`**: Cross-references config vars with code to show usage counts and identify orphaned vars (defined but never used).\n\n## \u{1F50D} Health Criteria\n\n- **Critical Issues**: Circular deps in core logic, >50 dead exports, orphaned env vars with secrets\n- **Warning Signs**: Layer violations (Test \u2192 Logic), >20 dead exports, >10 orphaned configs\n- **Good Health**: Clean layers, <10 dead exports, no circular deps, all configs in use\n',shadow_chronicle:`---
+name: chronicle
+description: Retrieve and analyze the repository's narrative archive as recorded in Git-native memory. Use when you need to understand historical decisions, catch up on repository progress, review recently completed missions, or when the user asks for a project history, changelog, or chronological overview of architectural changes.
+---
+
+# Repository Chronicle
+
+Retrieve narrative archive from Git-native memory.
+
+## \u{1F680} Workflow
+
+1. **Recent History**: \`shadow_ops_chronicle\` (limit: 10, format: "markdown", repoPath) \u2014 Last 10 entries.
+2. **Time-Filtered**: 
+   - \`shadow_ops_chronicle\` (since: &lt;unix&gt;, limit: 20, repoPath)
+   - \`shadow_ops_chronicle\` (until: &lt;unix&gt;, limit: 20, repoPath)
+3. **Structured Data**: \`shadow_ops_chronicle\` (format: "json", limit: 50, repoPath) \u2014 For processing.
+4. **Paginated**: \`shadow_ops_chronicle\` (limit: 10, offset: 10, repoPath) \u2014 Second page.
+
+## \u{1F6E0} Precise Tooling
+
+| Chronicle Query | Atomic Tool |
+| :--- | :--- |
+| **Recent (Markdown)** | \`shadow_ops_chronicle\` (limit: 10, format: "markdown") |
+| **Time Range** | \`shadow_ops_chronicle\` (since: &lt;unix&gt;, until: &lt;unix&gt;) |
+| **JSON Data** | \`shadow_ops_chronicle\` (format: "json", limit: 50) |
+| **Pagination** | \`shadow_ops_chronicle\` (limit: 10, offset: 10) |
+
+## Output Formats
+
+- **\`format: "markdown"\`** (default): Human-readable narrative feed with missions grouped as Strategic Initiatives and Standalone Episodes
+- **\`format: "json"\`**: Structured data for programmatic analysis (includes missionId, steps, timestamps, ADRs)
+
+## Use Cases
+
+- **Onboarding**: Read last 10 entries to catch up
+- **Release Notes**: Get completed missions since last release
+- **ADR Review**: Extract all architectural decisions
+- **Progress Reports**: Show what's been done this week
+
+**Note:** Chronicle reads from Git Notes, so it's persistent across branches and clones.
+`,shadow_continue:'---\nname: continue\ndescription: Get briefing, pick one mission from next_work_candidates, then work that mission to completion with all remaining steps in one run. Use when continuing work on missions, executing mission steps, or when the user asks to continue work, finish a mission, or proceed with development tasks.\n---\n\n**In one sentence:** Get briefing (+ optional trace), pick **one mission** from **next_work_candidates** (ranked by relevance), then work that mission to completion \u2014 all remaining steps in one run. Update and log as you go. No status reports; when you\'re done with that mission, it\'s done.\n\n---\n## 1. Context\n\n- **Option A (one shot):** `shadow_ops_context` (repoPath) \u2192 returns hologram + chronicle(5) + **briefing** (counts, **next_work_candidates** ranked by relevance). Use when you want architecture + history + backlog in one call at the start of /continue.\n- **Option B:** `shadow_ops_briefing` (scope: "project", repoPath) \u2192 **next_work_candidates** (relevance-ranked), hierarchy, analytics.\n  - Use **altitude** to control output density: `orbit` (~200 tokens, counts + candidates only), `atmosphere` (default, strategy + crystals), `ground` (raw logs + working set + collisions).\n- `shadow_sync_trace` (repoPath) only if you care about external changes. Otherwise skip.\n\n## 2. Pick one mission\n\n- **`next_work_candidates`** are ranked by the MissionRelevanceScorer (recency \xD7 0.4 + activity \xD7 0.3 + status \xD7 0.2 + blockers \xD7 0.1). Higher score = more relevant.\n- Choose the top-ranked candidate. Prefer in-progress over planned. Parent-only missions (umbrellas) are already filtered out.\n\n## 3. Work the whole mission\n\n- For that mission, run through **all remaining steps** (not just one):\n  - **Surgical Discovery:** `shadow_analyze_flow` (symbolName, filePath, repoPath).\n  - **Execute Step**: Set in-progress \u2192 implement \u2192 `shadow_ops_track` (missionId, stepId, status: "completed", contextPivot, repoPath).\n  - **Atomic Logging:** At least once per step. `shadow_ops_log` (missionId, type: "decision", content, symbolName, repoPath).\n- **Seal the mission**: `shadow_ops_track` (missionId, status: "completed", repoPath).\n  - This **auto-triggers**: ADR synthesis, Git Notes persistence, and cascade parent completion (if all sibling missions are also done, the parent auto-completes too).\n  - No need to call `shadow_ops_synthesize` separately \u2014 it\'s automatic on completion.\n- **Optional \u2014 Crystallize** (for long-running missions with many logs): `shadow_ops_crystallize` (missionId, repoPath) compresses raw intent logs into a single crystal summary. Useful mid-mission to keep briefings lean.\n\n## \u{1F6E0} Precise Tooling\n\n| Action | Atomic Tool | Example |\n| :--- | :--- | :--- |\n| **Context (one shot)** | `shadow_ops_context` | repoPath \u2014 hologram + chronicle + briefing |\n| **Briefing** | `shadow_ops_briefing` | scope: "project", altitude: "orbit", repoPath |\n| **Flow Trace** | `shadow_analyze_flow` | symbolName: "handleRequest", filePath, repoPath |\n| **Step Update** | `shadow_ops_track` | missionId: 4, stepId: "s2", status: "completed" |\n| **Intent Log** | `shadow_ops_log` | missionId: 4, type: "fix", content: "..." |\n| **Complete Mission** | `shadow_ops_track` | missionId: 4, status: "completed" \u2014 auto-synthesizes ADR |\n| **Crystallize** | `shadow_ops_crystallize` | missionId: 4 \u2014 compress logs mid-mission |\n\n*Note: Always use `symbolName` in `shadow_ops_log` to create Liquid Anchors.*\n\n## 4. Don\'t\n\n- Don\'t do one step and stop \u2014 /continue is "finish a mission," not "do one step."\n- Don\'t call `shadow_ops_synthesize` after completing \u2014 it\'s automatic on `status: "completed"`.\n- Don\'t long status reports. Don\'t ask "what should I work on?" unless a real tie. Don\'t auto-commit.\n\n---\n\n**Tools:** `shadow_ops_context` (optional start), `shadow_ops_briefing`, `shadow_ops_track`, `shadow_ops_log`, `shadow_ops_crystallize`, `shadow_sync_trace`. For discovery: `shadow_search_*`, `shadow_recon_*`, `shadow_analyze_*`.\n',shadow_crystallize:`---
+name: crystallize
+description: Compress a mission's intent logs into a dense crystal summary for token-efficient briefings. Use when a mission has accumulated many raw logs, when briefings are too verbose, or when the user asks about log compression, crystallization, or context reduction.
+---
+
+# Intent Log Crystallization
+
+Compress raw intent logs into a single crystal summary node. The crystal replaces verbose raw logs in briefings, reducing token usage while preserving the mission's key decisions, context, and consequences.
+
+## When to Crystallize
+
+- A mission has **10+ raw intent logs** and briefings are getting verbose.
+- Mid-mission, before requesting a detailed briefing \u2014 keeps \`atmosphere\` altitude lean.
+- Before synthesis (optional) \u2014 produces cleaner ADRs from compressed input.
+- The briefing at \`atmosphere\` altitude already prefers crystals over raw logs (\`findByMissionPreferCrystal\`), so crystallizing makes those briefings significantly leaner.
+
+## Workflow
+
+1. **Crystallize**: \`shadow_ops_crystallize\` (missionId, repoPath) \u2014 Compresses all raw logs into one crystal node. Raw logs are marked as \`absorbed\`.
+2. **Verify**: \`shadow_ops_briefing\` (scope: "mission", missionId, altitude: "atmosphere", repoPath) \u2014 Crystal should appear in \`recent_activity\` instead of raw logs.
+
+## Precise Tooling
+
+| Action | Atomic Tool | Usage |
+| :--- | :--- | :--- |
+| **Crystallize** | \`shadow_ops_crystallize\` | missionId, repoPath \u2014 compress raw logs |
+| **Check Status** | \`shadow_ops_briefing\` (altitude: "atmosphere") | Verify crystal appears in activity |
+| **Full Logs** | \`shadow_ops_briefing\` (altitude: "ground") | Still shows raw logs if needed |
+
+## What the Crystal Contains
+
+- Mission name and ID
+- Count of compressed logs and symbols
+- Log types present (decision, fix, discovery, blocker)
+- Structured breakdown: decisions, context, consequences, recommendations
+
+## Notes
+
+- Crystallization is **idempotent**: if no new raw logs exist, it reports \`already_crystallized\`.
+- New logs added after crystallization remain as raw until the next crystallize call.
+- Raw logs are **not deleted** \u2014 they're marked as absorbed. \`ground\` altitude still shows them.
+`,shadow_mission:`---
+name: mission
+description: Define the objective, strategy, and success criteria for a new development mission. Use when planning strategic initiatives, creating missions, setting up development goals, or when the user asks about mission planning, strategic alignment, or outcome contracts.
+---
+
+# Mission Strategy & Setup
+
+Define the objective, strategy, and success criteria for a new mission. This workflow is for **Strategic Alignment and Planning**.
+
+> **IMPORTANT**: This workflow stops at the "Ready to Execute" state. For implementation and automated execution, use **/continue**.
+
+## Workflow
+
+1.  **Session Context**: \`shadow_ops_context\` (repoPath) \u2014 **ONE CALL** for hologram + chronicle(5) + briefing (with relevance-ranked \`next_work_candidates\`). Check existing candidates and recent decisions before creating new work.
+2.  **Optional Expanded Context** (only if needed):
+    - \`shadow_recon_topography\` (repoPath) \u2014 Detailed layer breakdown to align goal with architecture.
+    - \`shadow_ops_chronicle\` (limit: 10, repoPath) \u2014 More historical ADRs if 5 isn't enough.
+    - \`shadow_ops_briefing\` (scope: "project", altitude: "ground", repoPath) \u2014 Full detail with analytics, collisions, and working sets.
+3.  **Strategic Plan**: \`shadow_ops_plan\` (name, goal, outcomeContract, ...).
+    *   **Strategy DAG**: Define logical steps and verification rules.
+    *   **Initiative vs Mission**: Decide if this is a parent (Initiative) or a leaf (Mission). Parent missions auto-complete via cascade when all children finish.
+4.  **Alignment**: Present the plan to the user. Do not begin execution until the user approves the strategy.
+
+## Precise Tooling
+
+| Setup Action | Precise Tool Call | Usage |
+| :--- | :--- | :--- |
+| **Session Start** | \`shadow_ops_context\` | **START HERE** \u2014 hologram + chronicle + briefing in one call |
+| **Establish Plan** | \`shadow_ops_plan\` | Create the mission and strategy. |
+| **Architectural Map** | \`shadow_recon_topography\` | Contextualize the target layers (if context wasn't enough). |
+| **Detailed Briefing** | \`shadow_ops_briefing\` (altitude: "ground") | Full analytics, collisions, working sets. |
+| **Lean Briefing** | \`shadow_ops_briefing\` (altitude: "orbit") | Counts + candidates only (~200 tokens). |
+| **Graph View** | \`shadow_ops_graph\` | Visualize the initiative's hierarchy. |
+
+*Note: **Always start with \`shadow_ops_context\`** for instant mission landscape + architectural context. Ensure the \`outcomeContract\` is binary and verifiable. Parent initiatives auto-cascade on child completion \u2014 no manual closing needed.*
+
+## Briefing Altitude Levels
+
+- **\`orbit\`** (~200 tokens): Counts + relevance-ranked candidates only. Use for quick checks.
+- **\`atmosphere\`** (default): Strategy graphs, crystal summaries, hierarchy, analytics.
+- **\`ground\`** (full): Raw logs, working sets, collision analysis, ancestor activity.
+
+## Intent Logging (Strategic Quality)
+
+Capture the "Why" and "How" during the planning phase to ensure the final ADR has architectural depth.
+
+*   **Decision Logs**: Capture why a specific strategy or library was chosen.
+*   **Discovery Logs**: Record insights found during initial reconnaissance.
+
+**Hand-off**: Once the mission is planned and logged, the setup phase is over. Execute via \`/continue\`.
+`,shadow_onboard:'---\nname: onboard\ndescription: Initialize and analyze a new repository for deep intelligence by building semantic index, syncing state, activating git hooks, and establishing missions. Use when onboarding to a new repository, initializing Shadow Engine, setting up git hooks, or when the user asks about repository setup, initialization, or first-time configuration.\n---\n\n# Repository Onboarding\n\nInitialize and analyze a new repository for deep intelligence.\n\n## Workflow\n\n1.  **Semantic Init**: `shadow_recon_onboard` (repoPath) \u2014 **Only run once** per repo to build the baseline. Auto-populates the hologram.\n2.  **Read Hologram**: `shadow_recon_hologram` (repoPath) \u2014 Get instant architectural context (~1300 tokens: topography + gravity zones).\n3.  **Unified Sync**: `shadow_sync_trace` (repoPath) \u2014 **The One-Stop Shop**. Performs indexing + ghost analysis + mission re-hydration.\n4.  **Active Briefing**: `shadow_ops_briefing` (scope: "project", altitude: "atmosphere", repoPath) \u2014 Resumes the shared backlog with relevance-ranked candidates.\n    - Use `altitude: "orbit"` for a lean overview (~200 tokens), or `altitude: "ground"` for full detail.\n5.  **Architectural Deep Dive** (optional):\n    - `shadow_recon_topography` (repoPath) \u2014 View layers (Entry/Logic/Data/Utility/Test).\n    - `shadow_ops_chronicle` (limit: 5, repoPath) \u2014 Narrative feed.\n6.  **Hooks Activation**: `shadow_env_hooks` (action: "install", repoPath).\n7.  **Establish Mission**: `shadow_ops_plan` (name, goal, repoPath).\n\n## Precise Tooling\n\n| Action | Atomic Tool |\n| :--- | :--- |\n| **Index** | `shadow_recon_onboard` |\n| **Hologram** | `shadow_recon_hologram` (repoPath) |\n| **Layers** | `shadow_recon_topography` |\n| **History** | `shadow_ops_chronicle` (limit: 10) |\n| **Resume (lean)** | `shadow_ops_briefing` (scope: "project", altitude: "orbit") |\n| **Resume (full)** | `shadow_ops_briefing` (scope: "project", altitude: "atmosphere") |\n| **Hooks** | `shadow_env_hooks` (action: "install") |\n\n*Note: Always use absolute paths for `repoPath`. Call `shadow_recon_hologram` immediately after init for instant architectural context.*\n',shadow_research:`---
+name: research
+description: Conduct high-signal research for external dependencies by combining local context, web search, and Context7 documentation. Use when researching libraries, checking integration examples, verifying versions, or when the user asks about external dependencies, library documentation, or integration patterns.
+---
+
+# External Research
+
+High-signal research for external dependencies.
+
+## \u{1F680} Workflow
+
+1. **Local Context**: \`shadow_search_concept\` (query: "library name", repoPath). Find existing integration examples.
+2. **Web Search**: Use the \`WebSearch\` tool for official docs and latest versions.
+3. **Deep Intel (Context7)**: resolve-library-id, query-docs (server: user-context7).
+4. **Integration Check**: \`shadow_inspect_file\` (filePath, detailLevel: "signatures", repoPath).
+5. **Log Findings**: \`shadow_ops_log\` (type: "discovery", content, repoPath).
+
+## \u{1F6E0} Precise Tooling
+
+| Discovery Layer | Atomic Tool |
+| :--- | :--- |
+| **Local Usage** | \`shadow_search_concept\` (query, **compact: true** for broad search) |
+| **File Discovery** | \`shadow_search_path\` (query, **ranked: true**) \u2014 gravity-sorted with layers |
+| **Config Check** | \`shadow_search_config\` (key, **showUsage: true**) \u2014 with usage counts |
+| **External Docs**| context7 tools (user-context7) |
+| **Relational** | \`shadow_analyze_deps\` (filePath, direction) |
+
+## \u{1F4A1} Intelligence Options
+
+- **\`shadow_search_concept\` with \`compact: true\`**: Returns file paths + scores without snippets (~60% token savings). Use for broad exploration.
+- **\`shadow_search_path\` with \`ranked: true\`**: Results sorted by gravity (high-import files first) with layer classification. Reveals architecturally important files.
+- **\`shadow_search_config\` with \`showUsage: true\`**: Shows usage counts per config var and identifies orphaned vars (defined but never used in code).
+
+*Note: Always check \`package.json\` for the exact version before querying Context7 to ensure documentation alignment.*`,shadow_sync:`---
+name: sync
+description: Sync index and mission state after external changes. Day-to-day: index + NanoRepair run automatically when MCP tools (search, inspect, etc.) trigger reindex. Use trace after git pull/checkout/merge (or rely on hooks); use index deep:true for full rebuild.
+---
+
+# Repository Synchronization
+
+**Day-to-day:** Index and NanoRepair run automatically when you use MCP tools (search, inspect, analyze, etc.) and a reindex occurs. No manual sync needed for edits or renames.
+
+## When to run sync manually
+
+| Situation | Action |
+| :--- | :--- |
+| **After git pull/checkout/merge** | \`shadow_sync_trace\` (repoPath) \u2014 or rely on Git hooks if installed |
+| **Full rebuild (corruption)** | \`shadow_sync_index\` (repoPath; use deep: true if supported) |
+| **Repair only (rare)** | \`shadow_sync_repair\` (repoPath) |
+
+**Note:** \`trace\` does index + ghost analysis + NanoRepair + lifecycle + mission re-hydration. Hooks run it on commit/checkout/merge.
+`,shadow_synthesize:`---
+name: synthesize
+description: Distill mission logs into Architectural Decision Records (ADRs) and persist them to the Shadow Engine and Git Notes. Use when completing missions, creating ADRs, synthesizing architectural decisions, or when the user asks about decision records, mission completion, or architectural documentation.
+---
+
+# Architectural Synthesis
+
+Distill mission logs into an Architectural Decision Record (ADR) and persist it to the Shadow Engine.
+
+> **AUTO-PILOT ACTIVE**: Synthesis is **automatically triggered** when a mission status is set to \`completed\` via \`shadow_ops_track\`. The system handles: ADR distillation (recursive for child missions), Git Notes persistence, and **cascade parent completion** (if all siblings are done, the parent auto-completes and synthesizes too).
+
+## Workflow
+
+1.  **Complete Mission**: \`shadow_ops_track\` (missionId, status: "completed", repoPath).
+    *   The Shadow Engine will automatically:
+        *   Distill all intent logs (recursive for child missions).
+        *   Format the ADR using markdown and **Liquid Anchors**.
+        *   Persist the record to SQLite and **Git Notes**.
+        *   **Cascade**: If all sibling missions under the same parent are completed, the parent mission auto-completes with its own ADR synthesis.
+2.  **Verify**: Check the synthesized record via \`shadow_ops_chronicle\` (limit: 5, repoPath).
+3.  **Manual Synthesis**: Use \`shadow_ops_synthesize\` only to **re-generate** an existing record or for specific partial distillations.
+4.  **Pre-synthesis Compression** (optional): For missions with many raw logs, \`shadow_ops_crystallize\` (missionId, repoPath) compresses logs into a crystal summary before synthesis for cleaner ADRs.
+
+## Precise Tooling
+
+| Action | Atomic Tool | Usage |
+| :--- | :--- | :--- |
+| **Complete & Seal** | \`shadow_ops_track\` (status: "completed") | **Primary**. Triggers auto-synthesis + cascade. |
+| **Manual Distill** | \`shadow_ops_synthesize\` | Re-run synthesis manually (re-gen only). |
+| **Crystallize First** | \`shadow_ops_crystallize\` | Compress raw logs before synthesis. |
+| **View Chronicle** | \`shadow_ops_chronicle\` | View the combined narrative feed. |
+
+*Note: Synthesis consolidation includes all child missions recursively. Cascade parent completion propagates upward through the entire hierarchy.*
+
+## Cascade Parent Completion
+
+When the last child mission under a parent is completed:
+1. Parent status is set to \`completed\`
+2. A system intent log records the cascade event
+3. Parent ADR is synthesized (recursive child distillation)
+4. Parent is synced to Git Notes
+5. If the parent itself has a parent, the cascade continues upward
+
+## Tooling Strategy
+
+Synthesis is the final commit of the mission's logic into the repository's permanent history. Avoid manual markdown files for ADRs; trust the **Git Notes** architecture to preserve the "Story of the Code."
+`,"shadow_trace-impact":'---\nname: trace-impact\ndescription: Map the blast radius of a change by analyzing impact, flow traces, cross-repo dependencies, and boundary maps. Use when analyzing change impact, assessing risk, tracing dependencies, or when the user asks about change impact, blast radius, or dependency analysis.\n---\n\n# Impact Analysis\n\nMap the blast radius of a change using the full Shadow analyze toolkit.\n\n## \u{1F680} Workflow\n\n1. **Session Context**: `shadow_ops_context` (repoPath) \u2014 **ONE CALL** for hologram + chronicle + briefing. Check if symbol is in gravity zones.\n2. **Impact (Blast Radius)**: `shadow_analyze_impact` (symbolName, filePath, depth: 3, repoPath) \u2014 ALL affected files.\n3. **Dependencies**:\n   - `shadow_analyze_deps` (filePath, direction: "imported_by", repoPath) \u2014 Who imports this?\n   - `shadow_analyze_deps` (filePath, direction: "imports", repoPath) \u2014 What does it import?\n4. **Flow Trace**: `shadow_analyze_flow` (symbolName, filePath, repoPath) \u2014 Execution path.\n5. **Health Check**:\n   - `shadow_analyze_debt` (mode: "circular-deps", repoPath) \u2014 Any import cycles?\n   - `shadow_analyze_debt` (mode: "dead-code", limit: 50, repoPath) \u2014 Unused exports?\n6. **Cross-Repo Check** (if multi-repo):\n   - `shadow_workspace_fuse` (repoPaths, repoPath).\n   - `shadow_search_symbol` (query, limit: 50, repoPath).\n7. **Boundary Map**: `shadow_recon_topography` (repoPath) \u2014 Layer crossing check.\n8. **Log Risk**: `shadow_ops_log` (missionId, type: "discovery", content, symbolName, repoPath).\n\n## \u{1F6E0} Precise Tooling\n\n| Impact Layer | Atomic Tool |\n| :--- | :--- |\n| **Session Start** \u{1F680} | `shadow_ops_context` (repoPath) \u2014 **START HERE** for context |\n| **Hologram** | `shadow_recon_hologram` (repoPath) \u2014 if you need standalone |\n| **Blast Radius** | `shadow_analyze_impact` (symbolName, depth: 3) |\n| **Dependents** | `shadow_analyze_deps` (filePath, direction: "imported_by") |\n| **Dependencies** | `shadow_analyze_deps` (filePath, direction: "imports") |\n| **Flow Path** | `shadow_analyze_flow` (symbolName, filePath) |\n| **Circular Deps** | `shadow_analyze_debt` (mode: "circular-deps") |\n| **Dead Code** | `shadow_analyze_debt` (mode: "dead-code", **confidenceThreshold: "high"**) |\n| **File Discovery** | `shadow_search_path` (query, **ranked: true**) \u2014 gravity-sorted |\n| **Workspace Fuse**| `shadow_workspace_fuse` (repoPaths, repoPath) |\n| **Topography** | `shadow_recon_topography` |\n\n## \u{1F4A1} Intelligence Options\n\n- **`shadow_search_path` with `ranked: true`**: Find related files sorted by gravity (high-import files first) with layer classification. Helps identify which affected files are architecturally critical.\n- **`shadow_analyze_debt` confidence levels**: Use `confidenceThreshold: "high"` to focus on likely dead code, avoiding noise from test fixtures and migrations.\n\n*Note: **Start with `shadow_ops_context`** for instant gravity zones + architectural context. Use depth higher than 3 for impact analysis only if the symbol is a fundamental primitive (e.g., RepositoryFactory).*\n\n## \u{1F6E0} Risk Classification\n\n- **Critical Risk**: Symbol in gravity zones (top 10) + >20 dependents + crosses layers\n- **High Risk**: >10 dependents OR crosses layers (e.g., Test -> Logic)\n- **Medium Risk**: 5-10 dependents within same layer\n- **Low Risk**: <5 dependents, same layer, no circular deps',shadow_understand:'---\nname: understand\ndescription: Find the high-signal path to understanding complex logic through intent retrieval, topological placement, relational analysis, and mechanics inspection. Use when understanding architecture, analyzing complex code, tracing logic flow, or when the user asks about how something works, architectural patterns, or code comprehension.\n---\n\n# Architectural Understanding\n\nFind the high-signal path to understanding complex logic.\n\n## Workflow\n\n1. **Session Context (The Fast Lane)**: `shadow_ops_context` (repoPath) \u2014 **ONE CALL** returns hologram + chronicle(5) + briefing (relevance-ranked candidates).\n   - Skip to step 3 if you have what you need from context alone.\n2. **Optional Expanded Context** (only if shadow_ops_context wasn\'t enough):\n   - `shadow_recon_topography` (repoPath) \u2014 Detailed layer breakdown beyond hologram summary.\n   - `shadow_recon_tree` (subPath: "src/services", maxDepth: 2, repoPath) \u2014 Visual file hierarchy.\n   - `shadow_ops_briefing` (scope: "mission", missionId, altitude: "ground") \u2014 Full mission detail with raw logs, working set, collisions.\n3. **Relational Analysis (The Who)**:\n   - `shadow_analyze_impact` (symbolName, filePath, depth: 3, repoPath) \u2014 Blast radius.\n   - `shadow_analyze_deps` (filePath, direction: "imported_by", repoPath) \u2014 Who depends on this?\n   - `shadow_search_concept` (query, repoPath) \u2014 Semantic search.\n4. **Mechanics (The How)**:\n   - **For Logic**: `shadow_analyze_flow` (symbolName, filePath, repoPath) \u2014 Trace execution.\n   - **For Objects**: `shadow_inspect_file` (filePath, detailLevel: "signatures", repoPath) \u2014 All exports.\n   - **For Symbol Deep Dive**: `shadow_inspect_symbol` (symbolName, filePath, context: "full", repoPath) \u2014 With deps.\n5. **Synthesis**: `shadow_ops_log` (missionId, type: "discovery", content, symbolName, repoPath).\n\n## Precise Tooling\n\n| Discovery Layer        | Atomic Tool                                           |\n| :--------------------- | :---------------------------------------------------- |\n| **Session Start**      | `shadow_ops_context` (repoPath) \u2014 **START HERE** |\n| **Hologram**           | `shadow_recon_hologram` (repoPath) \u2014 if you need standalone hologram |\n| **History**            | `shadow_ops_chronicle` (limit: 5) \u2014 if you need more than 5 from context |\n| **Layers**             | `shadow_recon_topography` \u2014 detailed breakdown |\n| **Mission Detail**     | `shadow_ops_briefing` (altitude: "ground") \u2014 full logs + working set |\n| **Blast Radius**       | `shadow_analyze_impact` (symbolName, depth: 3)        |\n| **Dependents**         | `shadow_analyze_deps` (filePath, direction: "imported_by") |\n| **Flow Trace**         | `shadow_analyze_flow` (symbolName, filePath)         |\n| **Structure**          | `shadow_inspect_file` (detailLevel: "signatures")      |\n| **Deep Dive**          | `shadow_inspect_symbol` (context: "full")             |\n| **File Discovery**     | `shadow_search_path` (query, **ranked: true**) \u2014 gravity-sorted results with layer classification |\n\n*Note: **ALWAYS start with `shadow_ops_context`** for instant architectural context + history + mission state in ONE call. Use `context: "definition"` for token-efficient single symbol inspection.*\n\n## Intelligence Options\n\n- **`shadow_search_path` with `ranked: true`**: Results sorted by gravity (high-import files first) with layer classification (Entry/Logic/Data). Use when you need to find the most architecturally important files matching a pattern.\n- **`shadow_search_concept` with `compact: true`**: Omits code snippets for ~60% token savings. Use for broad exploration before deep dives.\n- **Briefing altitude levels**: Use `orbit` for quick status, `atmosphere` for strategy + crystals, `ground` for raw logs + collisions.\n- **`shadow_ops_crystallize`**: If a mission has excessive raw logs, crystallize them first for leaner briefings.\n',shadow_workspace:`---
+name: workspace
+description: Manage multi-repository workspaces and cross-repo mission links using the Shadow Engine. Use when working with multiple repositories, federated search across repos, linking missions across repos, or when the user asks about workspace management, multi-repo workflows, or cross-repository dependencies.
+---
+
+# Workspace Orchestration
+
+Manage multi-repository workspaces and cross-repo mission links using the Shadow Engine.
+
+## \u{1F680} Workflow
+
+1. **List Workspaces**: \`shadow_workspace_list\` (repoPath, repoPaths).
+2. **Federated Search**: \`shadow_workspace_fuse\` (repoPath, repoPaths).
+3. **Link Missions**: \`shadow_workspace_link\` (parentRepoPath, parentMissionId, childRepoPath, childMissionId, relationship, repoPath).
+4. **Verify Graph**: \`shadow_ops_graph\` (missionId, depth, repoPath).
+
+## \u{1F6E0} Precise Tooling
+
+| Action | Atomic Tool | Example |
+| :--- | :--- | :--- |
+| **List** | \`shadow_workspace_list\` | \`{ repoPath, repoPaths: [...] }\` |
+| **Fuse** | \`shadow_workspace_fuse\` | \`{ repoPath, repoPaths: [...] }\` |
+| **Link** | \`shadow_workspace_link\` | \`{ parentMissionId: 1, childMissionId: 2, ... }\` |
+| **Visualize** | \`shadow_ops_graph\` | \`{ missionId: 1, depth: 3, repoPath }\` |
+
+*Note: Use fused search after \`shadow_workspace_fuse\` to look up concepts across all repositories simultaneously.*
+
+## \u{1F6E0} Tooling Strategy
+
+Use **\`shadow_workspace_fuse\`** early in multi-repo sessions to unlock "X-Ray" vision across boundaries.`};import{pino as Xl}from"pino";import*as oe from"@clack/prompts";var ps=Xl({transport:{target:"pino-pretty",options:{colorize:!0}}});async function la(i=!1,e=!1){oe.intro("\u{1F311} Liquid Shadow: Tactical Onboarding");let t=Kl.homedir(),n=st.join(t,".claude","skills"),s=st.join(t,".gemini","antigravity","global_workflows"),r=0,o=e||await oe.confirm({message:"Deploy Autonomous Reasoning Skills? (Injects /onboard, /understand, etc.)",initialValue:!0});if(oe.isCancel(o)){oe.outro("Onboarding aborted.");return}let c=e||await oe.confirm({message:"Connect to MCP Reasoning Engines? (Claude Code, Desktop, Antigravity)",initialValue:!0});if(oe.isCancel(c)){oe.outro("Onboarding aborted.");return}if(!o&&!c){oe.outro("No actions selected. Operational state unchanged.");return}let a=oe.spinner();if(a.start("Establishing intelligence assets..."),o){if(Ie.existsSync(n))for(let[l,p]of Object.entries(ei)){let u=st.join(n,l);Ie.existsSync(u)||Ie.mkdirSync(u,{recursive:!0});let d=st.join(u,"SKILL.md");(i||!Ie.existsSync(d))&&(Ie.writeFileSync(d,p),r++)}if(Ie.existsSync(s))for(let[l,p]of Object.entries(ei)){let u=st.join(s,`${l}.md`);(i||!Ie.existsSync(u))&&(Ie.writeFileSync(u,p),r++)}}c&&await Zl(t),a.stop("Intelligence layer established."),r>0?oe.note(`Successfully deployed ${r} tactical skills.`,"Manifest"):oe.note("No new skills deployed (up to date or scope skipped).","Manifest"),oe.outro("\u{1F311} Liquid Shadow is operational.")}async function Zl(i){let e=[{name:"Claude Code",path:st.join(i,".claude.json"),type:"stdio"},{name:"Antigravity IDE",path:st.join(i,".gemini","antigravity","mcp_config.json")},{name:"Claude Desktop",path:st.join(i,"Library","Application Support","Claude","claude_desktop_config.json")}];for(let t of e){if(!Ie.existsSync(t.path)){ps.debug(`${t.name} config not found at ${t.path}, skipping.`);continue}try{let n=Ie.readFileSync(t.path,"utf8"),s=JSON.parse(n);s.mcpServers||(s.mcpServers={});let r="liquid-shadow",o=s.mcpServers[r],c={command:"liquid-shadow-mcp",args:[],env:{}};if(t.type==="stdio"&&(c.type="stdio"),o){ps.info(`${t.name}: ${r} MCP server already configured.`);continue}s.mcpServers[r]=c,Ie.writeFileSync(t.path,JSON.stringify(s,null,2)),ps.info(`Updated ${t.name} config at ${t.path}`)}catch(n){ps.error(`Failed to update ${t.name} config at ${t.path}: ${n}`)}}}function le(i){let e=process.cwd();return hs(e,i.flags)}process.on("unhandledRejection",i=>{console.error("\x1B[31mUnhandled Rejection:\x1B[0m",i),J().then(()=>process.exit(1))});process.on("uncaughtException",i=>{console.error("\x1B[31mUncaught Exception:\x1B[0m",i),J().then(()=>process.exit(1))});var Z=ep().name("liquid-shadow").version("1.0.2").description("Tactical Repository Intelligence Operative - Liquid Shadow Ecosystem").scriptName("liquid-shadow");Z.command("index","Index the repository for AI analysis",{parameters:["[dir]"],flags:{output:{type:String,alias:"o",description:"Export to JSON file instead of indexing"},level:{type:String,alias:"l",description:"Detail level",default:"detailed"},subPath:{type:String,description:"Only process files within this subpath"},force:{type:Boolean,description:"Force re-indexing of all files",default:!1},deep:{type:Boolean,description:"Perform deep semantic indexing (headings + symbol embeddings)",default:!0}}}).on("index",async i=>{let e=le(i),t={...i.flags,dir:i.flags.dir??e.dir,level:i.flags.level??e.level,deep:i.flags.deep??e.deep};t.deep==="false"||t.deep===!1?t.deep=!1:t.deep=!0,await Ir(i.parameters.dir||e.dir,t)});Z.command("status","Show current repository intelligence status",{parameters:["[dir]"]}).on("status",async i=>{let e=le(i);await Di(i.parameters.dir||e.dir)});Z.command("dashboard","Operational intelligence dashboard (TUI)",{parameters:["[dir]"]}).on("dashboard",async i=>{let e=le(i);await Rs(i.parameters.dir||e.dir)});Z.command("metrics","Show performance metrics and observability data",{parameters:["[dir]"]}).on("metrics",async i=>{let e=le(i);await zi(i.parameters.dir||e.dir)});Z.command("benchmark","Run performance benchmark on repository indexing",{parameters:["[dir]"]}).on("benchmark",async i=>{let e=le(i);await Lr(i.parameters.dir||e.dir)});Z.command("tree","Visualize repository structure as a tree",{parameters:["[dir]"],flags:{subPath:{type:String,description:"Subpath to visualize"},depth:{type:String,alias:"d",description:"Max depth",default:"3"}}}).on("tree",async i=>{let e=le(i);await Tr(i.parameters.dir||e.dir,{...i.flags,dir:i.flags.dir??e.dir})});Z.command("recon","Repository reconnaissance and architecture analysis",{parameters:["<mode>","[dir]"],flags:{subPath:{type:String,description:"Subpath to focus on"}}}).on("recon",async i=>{let e=le(i);await yo(i.parameters.mode,i.parameters.dir||e.dir,{...i.flags})});Z.command("trace","Trace execution flow for a given file/symbol",{parameters:["<file>","[symbolName]"],flags:{dir:{type:String,alias:"d",default:"."}}}).on("trace",async i=>{let e=le(i);await Pr(i.parameters.file,{...i.flags,dir:i.flags.dir??e.dir,symbolName:i.parameters.symbolName})});Z.command("sync","Deep synchronize intelligence lifecycle (Trace + Repair + Re-hydrate)",{parameters:["[dir]"]}).on("sync",async i=>{let e=le(i);await ho(i.parameters.dir||e.dir,{})});Z.command("search-config","Search for configuration values",{parameters:["[key]"],flags:{dir:{type:String,alias:"d",default:"."},kind:{type:String,description:"Filter by config kind"}}}).on("search-config",async i=>{let e=le(i);await Io(i.parameters.key,{...i.flags,dir:i.flags.dir??e.dir})});Z.command("search-concept","Search for files by concept/intent (Semantic)",{parameters:["<query>"],flags:{dir:{type:String,alias:"d",default:"."},interactive:{type:Boolean,alias:"i",description:"Interactive TUI: pick a result to inspect",default:!1}}}).on("search-concept",async i=>{let e=le(i);await To(i.parameters.query,{...i.flags,dir:i.flags.dir??e.dir})});Z.command("search-symbol","Search for specific code symbols",{parameters:["<query>"],flags:{dir:{type:String,alias:"d",default:"."},interactive:{type:Boolean,alias:"i",description:"Interactive TUI: pick a result to inspect",default:!1}}}).on("search-symbol",async i=>{let e=le(i);await Ro(i.parameters.query,{...i.flags,dir:i.flags.dir??e.dir})});Z.command("search-fuzzy",'Fuzzy search for symbols (e.g., "usc" finds "UserServiceClient")',{parameters:["<query>"],flags:{dir:{type:String,alias:"d",default:"."},interactive:{type:Boolean,alias:"i",description:"Interactive TUI: pick a result to inspect",default:!1}}}).on("search-fuzzy",async i=>{let e=le(i);await ko(i.parameters.query,{...i.flags,dir:i.flags.dir??e.dir})});Z.command("hooks","Manage git hooks for automatic intelligence updates",{parameters:["<action>","[path]"]}).on("hooks",async i=>{await Co([i.parameters.action,i.parameters.path])});Z.command("workspace","Workspace-level mission orchestration",{parameters:["<action>","[args...]"]}).on("workspace",async i=>{await Wo([i.parameters.action,...i.parameters.args])});Z.command("mission","Mission management (start, plan, briefing, distill)",{parameters:["<action>","[args...]"]}).on("mission",async i=>{await sa([i.parameters.action,...i.parameters.args])});Z.command("inspect","Deep inspection of specific files or symbols",{parameters:["<mode>","[args...]"]}).on("inspect",async i=>{await ia([i.parameters.mode,...i.parameters.args])});Z.command("watch","Watch repo and reindex on file changes",{parameters:["[dir]"]}).on("watch",async i=>{let e=le(i);await aa(i.parameters.dir||e.dir)});Z.command("chronicle","Generate a repository-wide narrative feed (ADRs/Epics)",{parameters:["[dir]"],flags:{format:{type:String,alias:"f",description:"Output format (markdown|json)",default:"markdown"},limit:{type:Number,alias:"l",description:"Limit number of entries",default:10},offset:{type:Number,description:"Pagination offset",default:0},since:{type:String,description:"Show entries since date (YYYY-MM-DD)"},until:{type:String,description:"Show entries until date (YYYY-MM-DD)"}}}).on("chronicle",async i=>{let e=le(i);await ca(i.parameters.dir||e.dir,{...i.flags,format:i.flags.format,limit:i.flags.limit?parseInt(String(i.flags.limit),10):void 0,offset:i.flags.offset?parseInt(String(i.flags.offset),10):void 0,since:i.flags.since?Math.floor(new Date(String(i.flags.since)).getTime()/1e3):void 0,until:i.flags.until?Math.floor(new Date(String(i.flags.until)).getTime()/1e3):void 0})});Z.command("init","Initialize Liquid Shadow skills and configuration",{flags:{force:{type:Boolean,alias:"f",description:"Force overwrite existing skills",default:!1},yes:{type:Boolean,alias:"y",description:"Skip interactive confirmation (unsafe)",default:!1}}}).on("init",async i=>{await la(i.flags.force,i.flags.yes)});Z.command("completion","Generate shell completion script (bash or zsh)",{parameters:["<shell>"]}).on("completion",async i=>{await oa(i.parameters.shell||"")});if(process.argv.length<=2){let i=hs(process.cwd(),{});Rs(i.dir)}else Z.parse();