agentic-qe 3.9.6 → 3.9.8

package/dist/cli/chunks/{types-SAPPKMCS.js → types-7R72BACI.js}

@@ -1,2 +1,2 @@
-import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.6");process.exit(0)}
-import{a,b,c,d,e,f,g}from"./chunk-V3D6AA2P.js";import"./chunk-N5CEEWWJ.js";export{e as BudgetExceededError,f as ComplexityAnalysisError,b as DEFAULT_BUDGET_CONFIG,c as DEFAULT_ROUTER_CONFIG,d as ModelRouterError,g as RoutingTimeoutError,a as TIER_METADATA};
+import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.8");process.exit(0)}
+import{a,b,c,d,e,f,g}from"./chunk-QVGSD25D.js";import"./chunk-E4D36LGH.js";export{e as BudgetExceededError,f as ComplexityAnalysisError,b as DEFAULT_BUDGET_CONFIG,c as DEFAULT_ROUTER_CONFIG,d as ModelRouterError,g as RoutingTimeoutError,a as TIER_METADATA};

package/dist/cli/chunks/unified-memory-KSBLUZT4.js

@@ -0,0 +1,2 @@
+import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.8");process.exit(0)}
+import{a,b,e as f,f as g,g as h,h as i,i as j,j as k,k as l,l as m,m as n,o}from"./chunk-BZB5D4BO.js";import"./chunk-LFEBTWFS.js";import"./chunk-OT4JADWW.js";import"./chunk-CG3HIYF4.js";import"./chunk-VVNR4R22.js";import"./chunk-PG7CZ6Q4.js";import"./chunk-2V5VKOJ2.js";import"./chunk-HYACMUUR.js";import{a as c,d,e}from"./chunk-YOKRSFGA.js";import"./chunk-IHJXFWUL.js";import"./chunk-6DBYVKGA.js";import"./chunk-XVXSQOQG.js";import"./chunk-KJZU3E5G.js";import"./chunk-MVW7AACO.js";import"./chunk-TZMKO6PC.js";import"./chunk-E4D36LGH.js";o();export{a as ALLOWED_TABLE_NAMES,c as BinaryHeap,i as DEFAULT_UNIFIED_MEMORY_CONFIG,d as UnifiedHnswIndex,k as UnifiedMemoryManager,f as clearProjectRootCache,e as createHnswIndex,g as findProjectRoot,h as getDefaultDbPath,j as getResolvedDefaultConfig,l as getUnifiedMemory,m as initializeUnifiedMemory,n as resetUnifiedMemory,b as validateTableName};

package/dist/cli/chunks/unified-memory-hnsw-V3EOMQIZ.js

@@ -0,0 +1,2 @@
+import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.8");process.exit(0)}
+import{a,b,c,d,e,f}from"./chunk-YOKRSFGA.js";import"./chunk-IHJXFWUL.js";import"./chunk-6DBYVKGA.js";import"./chunk-XVXSQOQG.js";import"./chunk-KJZU3E5G.js";import"./chunk-MVW7AACO.js";import"./chunk-TZMKO6PC.js";import"./chunk-E4D36LGH.js";f();export{a as BinaryHeap,b as InMemoryHNSWIndex,c as RuvectorFlatIndex,d as UnifiedHnswIndex,e as createHnswIndex};

package/dist/cli/chunks/unified-persistence-URIRJ4BM.js

@@ -0,0 +1,2 @@
+import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.8");process.exit(0)}
+import{a,b,c,d,e}from"./chunk-4GMV6Z7Y.js";import"./chunk-BZB5D4BO.js";import"./chunk-LFEBTWFS.js";import"./chunk-OT4JADWW.js";import"./chunk-CG3HIYF4.js";import"./chunk-VVNR4R22.js";import"./chunk-PG7CZ6Q4.js";import"./chunk-2V5VKOJ2.js";import"./chunk-HYACMUUR.js";import"./chunk-YOKRSFGA.js";import"./chunk-IHJXFWUL.js";import"./chunk-6DBYVKGA.js";import"./chunk-XVXSQOQG.js";import"./chunk-KJZU3E5G.js";import"./chunk-MVW7AACO.js";import"./chunk-TZMKO6PC.js";import"./chunk-E4D36LGH.js";export{a as DEFAULT_UNIFIED_CONFIG,b as UnifiedPersistenceManager,c as getUnifiedPersistence,d as initializeUnifiedPersistence,e as resetUnifiedPersistence};

package/dist/cli/chunks/{validate-UZL2Y3GR.js → validate-TYB4ZTUL.js}

@@ -1,5 +1,5 @@
-import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.6");process.exit(0)}
-import{e as P}from"./chunk-QWVILMUX.js";import"./chunk-2FTTRGRS.js";import{a as V}from"./chunk-XOTBE543.js";import"./chunk-H7OP3RI2.js";import"./chunk-MA7OLK56.js";import"./chunk-BHOJLQLF.js";import{b as v,d as F}from"./chunk-MROCXAXJ.js";import"./chunk-Z5IOTEQI.js";import"./chunk-YQ7X6LKA.js";import"./chunk-N5CEEWWJ.js";F();import{Command as M}from"commander";import{readFileSync as A,writeFileSync as S,existsSync as C,readdirSync as O,statSync as B}from"fs";import{join as b,resolve as j,basename as I}from"path";import e from"chalk";function R(i){let n=j(i);if(!C(n))throw new Error(`Input path not found: ${n}`);if(B(n).isDirectory()){let r=[],t=O(n).filter(o=>o.endsWith(".json")).map(o=>b(n,o));for(let o of t)try{let u=v(A(o,"utf-8"));if($(u))r.push(u);else if(Array.isArray(u))for(let d of u)$(d)&&r.push(d)}catch{console.warn(e.yellow(`Warning: Could not parse ${I(o)}`))}return r}else{let r=v(A(n,"utf-8"));if($(r))return[r];if(Array.isArray(r))return r.filter($);throw new Error("Invalid input format. Expected ParallelValidationRunResult or array of results.")}}function $(i){return typeof i=="object"&&i!==null&&"runId"in i&&"model"in i&&"outcomes"in i&&Array.isArray(i.outcomes)}function D(){return V({storeQEPattern:async()=>{},searchQEPatterns:async()=>({success:!0,value:[]}),addFact:async()=>({success:!0,value:void 0}),query:async()=>({success:!0,value:{results:[],confidence:0}}),getStats:()=>({totalPatterns:0,totalFacts:0,indexHealth:1,lastCompaction:new Date})})}function T(){let i=process.cwd(),n=[b(i,".claude/skills/trust-tier-manifest.json"),b(i,".claude/skills/skills-manifest.json")];for(let g of n)if(C(g))return g;return b(i,".claude/skills/trust-tier-manifest.json")}function L(i,n,g){let r=g.format||"markdown";if(r==="markdown"||r==="both"){let t=n.generateMarkdownReport(i);if(g.output){let o=r==="both"?g.output.replace(/\.\w+$/,".md"):g.output;S(o,t),console.log(e.green(`Markdown report written to: ${o}`))}else console.log(`
+import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.8");process.exit(0)}
+import{e as P}from"./chunk-I7OH6RAC.js";import"./chunk-2QI5RYVR.js";import{a as V}from"./chunk-OGFGNAKQ.js";import"./chunk-OZTSMI7P.js";import"./chunk-OT4JADWW.js";import"./chunk-CG3HIYF4.js";import{b as v,d as F}from"./chunk-VVNR4R22.js";import"./chunk-PG7CZ6Q4.js";import"./chunk-IHJXFWUL.js";import"./chunk-E4D36LGH.js";F();import{Command as M}from"commander";import{readFileSync as A,writeFileSync as S,existsSync as C,readdirSync as O,statSync as B}from"fs";import{join as b,resolve as j,basename as I}from"path";import e from"chalk";function R(i){let n=j(i);if(!C(n))throw new Error(`Input path not found: ${n}`);if(B(n).isDirectory()){let r=[],t=O(n).filter(o=>o.endsWith(".json")).map(o=>b(n,o));for(let o of t)try{let u=v(A(o,"utf-8"));if($(u))r.push(u);else if(Array.isArray(u))for(let d of u)$(d)&&r.push(d)}catch{console.warn(e.yellow(`Warning: Could not parse ${I(o)}`))}return r}else{let r=v(A(n,"utf-8"));if($(r))return[r];if(Array.isArray(r))return r.filter($);throw new Error("Invalid input format. Expected ParallelValidationRunResult or array of results.")}}function $(i){return typeof i=="object"&&i!==null&&"runId"in i&&"model"in i&&"outcomes"in i&&Array.isArray(i.outcomes)}function D(){return V({storeQEPattern:async()=>{},searchQEPatterns:async()=>({success:!0,value:[]}),addFact:async()=>({success:!0,value:void 0}),query:async()=>({success:!0,value:{results:[],confidence:0}}),getStats:()=>({totalPatterns:0,totalFacts:0,indexHealth:1,lastCompaction:new Date})})}function T(){let i=process.cwd(),n=[b(i,".claude/skills/trust-tier-manifest.json"),b(i,".claude/skills/skills-manifest.json")];for(let g of n)if(C(g))return g;return b(i,".claude/skills/trust-tier-manifest.json")}function L(i,n,g){let r=g.format||"markdown";if(r==="markdown"||r==="both"){let t=n.generateMarkdownReport(i);if(g.output){let o=r==="both"?g.output.replace(/\.\w+$/,".md"):g.output;S(o,t),console.log(e.green(`Markdown report written to: ${o}`))}else console.log(`
 `+t)}if(r==="json"||r==="both"){let t=n.generateJsonReport(i);if(g.output){let o=r==="both"?g.output.replace(/\.\w+$/,".json"):g.output;S(o,t),console.log(e.green(`JSON report written to: ${o}`))}else console.log(`
 `+t)}}function G(i,n,g){let r=new M("skill").description("Skill validation and reporting (ADR-056)");return r.command("report").description("Generate aggregated report from validation results").requiredOption("-i, --input <path>","Input file or directory containing validation results").option("-o, --output <path>","Output file path (default: stdout)").option("-f, --format <format>","Output format: markdown, json, or both","markdown").option("-b, --baseline <path>","Baseline directory for regression detection").option("--detect-regressions","Enable regression detection against historical data").option("--update-manifest","Update trust tier manifest with new pass rates").option("-t, --threshold <number>","Regression threshold (0-1)",parseFloat).option("-v, --verbose","Verbose output").action(async t=>{try{t.verbose&&(console.log(e.blue(`
 Validation Result Aggregator`)),console.log(e.gray(`ADR-056 Phase 5

package/dist/cli/chunks/{validate-swarm-ILNS64DZ.js → validate-swarm-3TFI6PLT.js}

@@ -1,5 +1,5 @@
-import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.6");process.exit(0)}
-import{a as h}from"./chunk-TSZ6VMCF.js";import{a as i,b as v,c as d,d as p}from"./chunk-QWVILMUX.js";import"./chunk-2FTTRGRS.js";import{a as k}from"./chunk-XOTBE543.js";import"./chunk-3U3NUFII.js";import"./chunk-H7OP3RI2.js";import"./chunk-WOR67NKR.js";import"./chunk-MV52OH7P.js";import"./chunk-L6HQVZQL.js";import"./chunk-H4J456F2.js";import"./chunk-MX3ORXM3.js";import"./chunk-VMDSTKVR.js";import"./chunk-SQCNABS4.js";import"./chunk-YV34KLBV.js";import"./chunk-7EDVNITA.js";import"./chunk-MA7OLK56.js";import"./chunk-BHOJLQLF.js";import"./chunk-MROCXAXJ.js";import"./chunk-KI4W6CVC.js";import"./chunk-Z5IOTEQI.js";import"./chunk-3VBPPW7H.js";import"./chunk-CU3LGMOK.js";import"./chunk-775KESYW.js";import"./chunk-5AXU6KCI.js";import"./chunk-YQ7X6LKA.js";import"./chunk-5CKG46BM.js";import"./chunk-EJSRKZ5M.js";import"./chunk-SYYGXU7I.js";import"./chunk-V2IUGAJ7.js";import"./chunk-NSRIYP76.js";import"./chunk-N5CEEWWJ.js";import{Command as x}from"commander";import o from"chalk";function _(e,t,a){let c=new x("validate").description("Validation commands for skills and agents");return c.command("swarm").description("Validate skills in parallel using Claude Flow swarms (ADR-056)").option("-s, --skills <skills>",'Comma-separated list of skills to validate, or "all" for P0 skills',"all").option("-m, --models <models>","Comma-separated list of models to validate against",p.join(",")).option("-t, --topology <topology>","Swarm topology: hierarchical or mesh","hierarchical").option("--max-concurrent <number>","Maximum concurrent skill validations",String(i.maxConcurrentSkills)).option("--max-models <number>","Maximum concurrent models per skill",String(i.maxConcurrentModels)).option("--timeout <ms>","Timeout per validation in milliseconds",String(i.timeout)).option("--no-retry","Disable retries on failure").option("-v, --verbose","Show detailed output").option("--json","Output results as JSON").action(async l=>{if(await a())try{console.log(o.blue(`
+import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.8");process.exit(0)}
+import{a as h}from"./chunk-4EAAHMVM.js";import{a as i,b as v,c as d,d as p}from"./chunk-I7OH6RAC.js";import"./chunk-2QI5RYVR.js";import{a as k}from"./chunk-OGFGNAKQ.js";import"./chunk-XPL3BXLM.js";import"./chunk-OZTSMI7P.js";import"./chunk-JCROLOP6.js";import"./chunk-A4DJMFDM.js";import"./chunk-ZCKNGICX.js";import"./chunk-UGJNR52C.js";import"./chunk-LOANEFGZ.js";import"./chunk-X66IXWSO.js";import"./chunk-BZB5D4BO.js";import"./chunk-LFEBTWFS.js";import"./chunk-WXEDVKJS.js";import"./chunk-OT4JADWW.js";import"./chunk-CG3HIYF4.js";import"./chunk-VVNR4R22.js";import"./chunk-R2LWLZ3Y.js";import"./chunk-PG7CZ6Q4.js";import"./chunk-IP2Z4Z6X.js";import"./chunk-2V5VKOJ2.js";import"./chunk-HYACMUUR.js";import"./chunk-YOKRSFGA.js";import"./chunk-IHJXFWUL.js";import"./chunk-6DBYVKGA.js";import"./chunk-XVXSQOQG.js";import"./chunk-KJZU3E5G.js";import"./chunk-MVW7AACO.js";import"./chunk-TZMKO6PC.js";import"./chunk-E4D36LGH.js";import{Command as x}from"commander";import o from"chalk";function _(e,t,a){let c=new x("validate").description("Validation commands for skills and agents");return c.command("swarm").description("Validate skills in parallel using Claude Flow swarms (ADR-056)").option("-s, --skills <skills>",'Comma-separated list of skills to validate, or "all" for P0 skills',"all").option("-m, --models <models>","Comma-separated list of models to validate against",p.join(",")).option("-t, --topology <topology>","Swarm topology: hierarchical or mesh","hierarchical").option("--max-concurrent <number>","Maximum concurrent skill validations",String(i.maxConcurrentSkills)).option("--max-models <number>","Maximum concurrent models per skill",String(i.maxConcurrentModels)).option("--timeout <ms>","Timeout per validation in milliseconds",String(i.timeout)).option("--no-retry","Disable retries on failure").option("-v, --verbose","Show detailed output").option("--json","Output results as JSON").action(async l=>{if(await a())try{console.log(o.blue(`
  Swarm Skill Validation
 `));let r=l.skills==="all"?[...d]:l.skills.split(",").map(y=>y.trim()),u=l.models.split(",").map(y=>y.trim()),g=P(l.topology),n={topology:g,maxConcurrentSkills:parseInt(l.maxConcurrent,10)||i.maxConcurrentSkills,maxConcurrentModels:parseInt(l.maxModels,10)||i.maxConcurrentModels,timeout:parseInt(l.timeout,10)||i.timeout,continueOnFailure:!0,retry:l.retry!==!1?i.retry:void 0};l.verbose&&(console.log(o.gray("Configuration:")),console.log(o.gray(`  Topology: ${n.topology}`)),console.log(o.gray(`  Skills: ${r.length}`)),console.log(o.gray(`  Models: ${u.length}`)),console.log(o.gray(`  Max Concurrent Skills: ${n.maxConcurrentSkills}`)),console.log(o.gray(`  Max Concurrent Models: ${n.maxConcurrentModels}`)),console.log(o.gray(`  Timeout: ${n.timeout}ms`)),console.log(o.gray(`  Retry: ${n.retry?"enabled":"disabled"}`)),console.log("")),console.log(o.cyan(`  Skills: ${r.join(", ")}`)),console.log(o.cyan(`  Models: ${u.join(", ")}`)),console.log(o.cyan(`  Topology: ${g}`)),console.log("");let m=await R(e),f=k(m),C=v(n,f),w=Date.now();console.log(o.yellow(`  Starting parallel validation...
 `));let $=await C.validateSkillsParallel(r,u),s=C.getSummary($),b=Date.now()-w;l.json?T(s):V(s,l.verbose),console.log(o.blue(`

package/dist/cli/chunks/{vibium-CJMPXUAU.js → vibium-3YELURJT.js}

@@ -1,2 +1,2 @@
-import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.6");process.exit(0)}
-import{c as t}from"./chunk-N5CEEWWJ.js";import{createRequire as o}from"module";var i,e,a,c,l,p,s,m,u,d,A,f,h,_,b,v,L,n=t(()=>{i=o(import.meta.url),e=i("vibium"),a=e,{RuvectorLayer:c,TensorCompress:l,differentiableSearch:p,hierarchicalForward:s,getCompressionLevel:m,init:u,FlashAttention:d,DotProductAttention:A,MultiHeadAttention:f,HyperbolicAttention:h,LinearAttention:_,MoEAttention:b,SonaEngine:v,pipeline:L}=e||{}});n();export{A as DotProductAttention,d as FlashAttention,h as HyperbolicAttention,_ as LinearAttention,b as MoEAttention,f as MultiHeadAttention,c as RuvectorLayer,v as SonaEngine,l as TensorCompress,a as default,p as differentiableSearch,m as getCompressionLevel,s as hierarchicalForward,u as init,L as pipeline};
+import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.8");process.exit(0)}
+import{c as t}from"./chunk-E4D36LGH.js";import{createRequire as o}from"module";var i,e,a,c,l,p,s,m,u,d,A,f,h,_,b,v,L,n=t(()=>{i=o(import.meta.url),e=i("vibium"),a=e,{RuvectorLayer:c,TensorCompress:l,differentiableSearch:p,hierarchicalForward:s,getCompressionLevel:m,init:u,FlashAttention:d,DotProductAttention:A,MultiHeadAttention:f,HyperbolicAttention:h,LinearAttention:_,MoEAttention:b,SonaEngine:v,pipeline:L}=e||{}});n();export{A as DotProductAttention,d as FlashAttention,h as HyperbolicAttention,_ as LinearAttention,b as MoEAttention,f as MultiHeadAttention,c as RuvectorLayer,v as SonaEngine,l as TensorCompress,a as default,p as differentiableSearch,m as getCompressionLevel,s as hierarchicalForward,u as init,L as pipeline};

package/dist/cli/chunks/visual-security-DJOOVCBZ.js

@@ -0,0 +1,2 @@
+import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.8");process.exit(0)}
+import{a}from"./chunk-IZTUAI5T.js";import"./chunk-Q5PARJC6.js";import"./chunk-TDPHLQ2M.js";import"./chunk-BZB5D4BO.js";import"./chunk-LFEBTWFS.js";import"./chunk-OT4JADWW.js";import"./chunk-CG3HIYF4.js";import"./chunk-VVNR4R22.js";import"./chunk-PG7CZ6Q4.js";import"./chunk-IP2Z4Z6X.js";import"./chunk-2V5VKOJ2.js";import"./chunk-HYACMUUR.js";import"./chunk-YOKRSFGA.js";import"./chunk-IHJXFWUL.js";import"./chunk-6DBYVKGA.js";import"./chunk-XVXSQOQG.js";import"./chunk-KJZU3E5G.js";import"./chunk-MVW7AACO.js";import"./chunk-TZMKO6PC.js";import"./chunk-E4D36LGH.js";export{a as VisualSecurityTool};

package/dist/cli/chunks/{web-tree-sitter-HO5UYPPH.js → web-tree-sitter-7Q77A27Y.js}

@@ -1,2 +1,2 @@
-import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.6");process.exit(0)}
-import"./chunk-N5CEEWWJ.js";import{createRequire as t}from"module";var o=t(import.meta.url),e=o("web-tree-sitter"),i=e,{RuvectorLayer:n,TensorCompress:a,differentiableSearch:c,hierarchicalForward:s,getCompressionLevel:l,init:p,FlashAttention:m,DotProductAttention:u,MultiHeadAttention:d,HyperbolicAttention:A,LinearAttention:f,MoEAttention:h,SonaEngine:_,pipeline:b}=e||{};export{u as DotProductAttention,m as FlashAttention,A as HyperbolicAttention,f as LinearAttention,h as MoEAttention,d as MultiHeadAttention,n as RuvectorLayer,_ as SonaEngine,a as TensorCompress,i as default,c as differentiableSearch,l as getCompressionLevel,s as hierarchicalForward,p as init,b as pipeline};
+import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.8");process.exit(0)}
+import"./chunk-E4D36LGH.js";import{createRequire as t}from"module";var o=t(import.meta.url),e=o("web-tree-sitter"),i=e,{RuvectorLayer:n,TensorCompress:a,differentiableSearch:c,hierarchicalForward:s,getCompressionLevel:l,init:p,FlashAttention:m,DotProductAttention:u,MultiHeadAttention:d,HyperbolicAttention:A,LinearAttention:f,MoEAttention:h,SonaEngine:_,pipeline:b}=e||{};export{u as DotProductAttention,m as FlashAttention,A as HyperbolicAttention,f as LinearAttention,h as MoEAttention,d as MultiHeadAttention,n as RuvectorLayer,_ as SonaEngine,a as TensorCompress,i as default,c as differentiableSearch,l as getCompressionLevel,s as hierarchicalForward,p as init,b as pipeline};

package/dist/cli/chunks/{windsurf-installer-TEXMCEBB.js → windsurf-installer-ASARRM2X.js}

@@ -1,5 +1,5 @@
-import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.6");process.exit(0)}
-import{b as u}from"./chunk-LZ5LS4LF.js";import{a as f,c as h}from"./chunk-Z5IOTEQI.js";import"./chunk-N5CEEWWJ.js";h();import{existsSync as i,mkdirSync as d,readFileSync as g,writeFileSync as a}from"fs";import{join as p,dirname as v}from"path";var c=class{projectRoot;overwrite;generator;constructor(e){this.projectRoot=e.projectRoot,this.overwrite=e.overwrite??!1,this.generator=u()}async install(){let e={success:!0,mcpConfigured:!1,rulesInstalled:!1,errors:[],configPath:"",rulesPath:""};try{let t=this.generator.generateMcpConfig("windsurf"),r=p(this.projectRoot,t.path);if(e.configPath=r,!i(r)||this.overwrite){let o=v(r);if(i(o)||d(o,{recursive:!0}),i(r)&&this.overwrite){let m=this.mergeExistingConfig(r,t.content);a(r,m)}else a(r,t.content);e.mcpConfigured=!0}let n=this.generator.generateBehavioralRules("windsurf"),s=p(this.projectRoot,n.path);if(e.rulesPath=s,!i(s)||this.overwrite){if(i(s)&&this.overwrite){let o=this.mergeExistingRules(s,n.content);a(s,o)}else a(s,n.content);e.rulesInstalled=!0}}catch(t){e.success=!1,e.errors.push(`Windsurf installation failed: ${f(t)}`)}return e}mergeExistingConfig(e,t){try{let r=JSON.parse(g(e,"utf-8")),n=JSON.parse(t);return r.mcpServers||(r.mcpServers={}),Object.assign(r.mcpServers,n.mcpServers),JSON.stringify(r,null,2)+`
+import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.8");process.exit(0)}
+import{b as u}from"./chunk-LPRHYSXN.js";import{a as f,c as h}from"./chunk-PG7CZ6Q4.js";import"./chunk-E4D36LGH.js";h();import{existsSync as i,mkdirSync as d,readFileSync as g,writeFileSync as a}from"fs";import{join as p,dirname as v}from"path";var c=class{projectRoot;overwrite;generator;constructor(e){this.projectRoot=e.projectRoot,this.overwrite=e.overwrite??!1,this.generator=u()}async install(){let e={success:!0,mcpConfigured:!1,rulesInstalled:!1,errors:[],configPath:"",rulesPath:""};try{let t=this.generator.generateMcpConfig("windsurf"),r=p(this.projectRoot,t.path);if(e.configPath=r,!i(r)||this.overwrite){let o=v(r);if(i(o)||d(o,{recursive:!0}),i(r)&&this.overwrite){let m=this.mergeExistingConfig(r,t.content);a(r,m)}else a(r,t.content);e.mcpConfigured=!0}let n=this.generator.generateBehavioralRules("windsurf"),s=p(this.projectRoot,n.path);if(e.rulesPath=s,!i(s)||this.overwrite){if(i(s)&&this.overwrite){let o=this.mergeExistingRules(s,n.content);a(s,o)}else a(s,n.content);e.rulesInstalled=!0}}catch(t){e.success=!1,e.errors.push(`Windsurf installation failed: ${f(t)}`)}return e}mergeExistingConfig(e,t){try{let r=JSON.parse(g(e,"utf-8")),n=JSON.parse(t);return r.mcpServers||(r.mcpServers={}),Object.assign(r.mcpServers,n.mcpServers),JSON.stringify(r,null,2)+`
 `}catch{return t}}mergeExistingRules(e,t){try{let r=g(e,"utf-8");return r.includes("Agentic QE")||r.includes("fleet_init")?r:r.trimEnd()+`
 
 ---

package/dist/cli/chunks/{witness-chain-TF35D7QS.js → witness-chain-WZ6PNXEY.js}

@@ -1,2 +1,2 @@
-import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.6");process.exit(0)}
-import{a,b,c,d,e,f,g}from"./chunk-7EDVNITA.js";import"./chunk-MA7OLK56.js";import"./chunk-BHOJLQLF.js";import"./chunk-NSRIYP76.js";import"./chunk-N5CEEWWJ.js";export{c as PersistentWitnessChain,a as SPRTAccumulator,b as WitnessChain,f as createPersistentWitnessChain,e as createWitnessChain,d as createWitnessChainSQLitePersistence,g as isWitnessChainFeatureEnabled};
+import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.8");process.exit(0)}
+import{a,b,c,d,e,f,g}from"./chunk-WXEDVKJS.js";import"./chunk-OT4JADWW.js";import"./chunk-CG3HIYF4.js";import"./chunk-TZMKO6PC.js";import"./chunk-E4D36LGH.js";export{c as PersistentWitnessChain,a as SPRTAccumulator,b as WitnessChain,f as createPersistentWitnessChain,e as createWitnessChain,d as createWitnessChainSQLitePersistence,g as isWitnessChainFeatureEnabled};

package/dist/cli/chunks/witness-chain-ZWJUCXCJ.js

@@ -0,0 +1,2 @@
+import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.8");process.exit(0)}
+import{a,b,c,d,e,f,g,h}from"./chunk-TN72MXLI.js";import"./chunk-BZB5D4BO.js";import"./chunk-LFEBTWFS.js";import"./chunk-OT4JADWW.js";import"./chunk-CG3HIYF4.js";import"./chunk-VVNR4R22.js";import"./chunk-PG7CZ6Q4.js";import"./chunk-2V5VKOJ2.js";import"./chunk-HYACMUUR.js";import"./chunk-YOKRSFGA.js";import"./chunk-IHJXFWUL.js";import"./chunk-6DBYVKGA.js";import"./chunk-XVXSQOQG.js";import"./chunk-KJZU3E5G.js";import"./chunk-MVW7AACO.js";import"./chunk-TZMKO6PC.js";import"./chunk-E4D36LGH.js";export{a as GENESIS_PREV_HASH,f as WitnessChain,h as createWitnessChain,g as getWitnessChain,d as hashWith,e as serializeEntry,b as sha256,c as shake256};

package/dist/cli/chunks/{workflow-APRDB3SB.js → workflow-JDTEE6TY.js}

@@ -1,5 +1,5 @@
-import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.6");process.exit(0)}
-import"./chunk-2DGTT6D2.js";import{b as $}from"./chunk-YI54PU4P.js";import{d as R}from"./chunk-JB3G5ZLL.js";import{b as k,c as C,d as b}from"./chunk-46442R6Q.js";import{c as W}from"./chunk-MROCXAXJ.js";import"./chunk-KI4W6CVC.js";import"./chunk-Z5IOTEQI.js";import"./chunk-N5CEEWWJ.js";import{Command as O}from"commander";import o from"chalk";function P(d,a){let m=d.indexOf("=");return m>0&&(a[d.substring(0,m)]=d.substring(m+1)),a}function x(d,a,m){let y=new O("workflow").description("Manage QE workflows and pipelines (ADR-041)");return y.command("run <file>").description("Execute a QE pipeline from YAML file").option("-w, --watch","Watch execution progress").option("-v, --verbose","Show detailed output").option("--params <json>","Additional parameters as JSON","{}").action(async(t,l)=>{if(!await m())return;let e=await import("fs"),c=(await import("path")).resolve(t);try{console.log(o.blue(`
+import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.8");process.exit(0)}
+import"./chunk-YIJDCZVX.js";import{b as $}from"./chunk-KMGAJRQ6.js";import{d as R}from"./chunk-ELZ5SKEN.js";import{b as k,c as C,d as b}from"./chunk-5TGK7VTS.js";import{c as W}from"./chunk-VVNR4R22.js";import"./chunk-R2LWLZ3Y.js";import"./chunk-PG7CZ6Q4.js";import"./chunk-E4D36LGH.js";import{Command as O}from"commander";import o from"chalk";function P(d,a){let m=d.indexOf("=");return m>0&&(a[d.substring(0,m)]=d.substring(m+1)),a}function x(d,a,m){let y=new O("workflow").description("Manage QE workflows and pipelines (ADR-041)");return y.command("run <file>").description("Execute a QE pipeline from YAML file").option("-w, --watch","Watch execution progress").option("-v, --verbose","Show detailed output").option("--params <json>","Additional parameters as JSON","{}").action(async(t,l)=>{if(!await m())return;let e=await import("fs"),c=(await import("path")).resolve(t);try{console.log(o.blue(`
  Running workflow from: ${t}
 `));let s=k(c);if(!s.success||!s.workflow){console.log(o.red("Failed to parse pipeline:"));for(let w of s.errors)console.log(o.red(`   ${w}`));await a(1)}let r={...W(l.params,"params")};if(s.pipeline){for(let w of s.pipeline.stages)if(w.params)for(let[S,h]of Object.entries(w.params))r[S]=h}if(!d.workflowOrchestrator.getWorkflow(s.workflow.id)){let w=d.workflowOrchestrator.registerWorkflow(s.workflow);w.success||(console.log(o.red(`Failed to register workflow: ${w.error.message}`)),await a(1))}let n=await d.workflowOrchestrator.executeWorkflow(s.workflow.id,r);if(!n.success){console.log(o.red(`Failed to start workflow: ${n.error.message}`)),await a(1);return}let p=n.value;if(console.log(o.cyan(`  Execution ID: ${p}`)),console.log(o.gray(`  Workflow: ${s.workflow.name}`)),console.log(o.gray(`  Stages: ${s.workflow.steps.length}`)),console.log(""),l.watch){console.log(o.blue(`Workflow Progress:
 `));let w,S=Date.now();for(;;){let g=d.workflowOrchestrator.getWorkflowStatus(p);if(!g)break;if(!w||w.progress!==g.progress||w.status!==g.status||JSON.stringify(w.currentSteps)!==JSON.stringify(g.currentSteps)){process.stdout.write("\r\x1B[K");let v="\u2588".repeat(Math.floor(g.progress/5))+"\u2591".repeat(20-Math.floor(g.progress/5)),D=g.status==="completed"?o.green:g.status==="failed"?o.red:g.status==="running"?o.yellow:o.gray;console.log(`  [${v}] ${g.progress}% - ${D(g.status)}`),g.currentSteps.length>0&&l.verbose&&console.log(o.gray(`    Running: ${g.currentSteps.join(", ")}`)),w=g}if(g.status==="completed"||g.status==="failed"||g.status==="cancelled")break;await new Promise(v=>setTimeout(v,500))}let h=d.workflowOrchestrator.getWorkflowStatus(p);if(h){console.log("");let g=h.duration||Date.now()-S;h.status==="completed"?(console.log(o.green("Workflow completed successfully")),console.log(o.gray(`   Duration: ${$(g)}`)),console.log(o.gray(`   Completed: ${h.completedSteps.length} stages`)),h.skippedSteps.length>0&&console.log(o.yellow(`   Skipped: ${h.skippedSteps.length} stages`))):h.status==="failed"?(console.log(o.red("Workflow failed")),console.log(o.red(`   Error: ${h.error}`)),console.log(o.gray(`   Failed stages: ${h.failedSteps.join(", ")}`))):console.log(o.yellow(`Workflow ${h.status}`))}}else console.log(o.green("Workflow execution started")),console.log(o.gray(`   Use 'aqe workflow status ${p}' to check progress`));console.log(""),await a(0)}catch(s){console.error(o.red(`
@@ -35,10 +35,10 @@ Workflow cancelled: ${t}
 `)):console.log(o.red(`
 Failed to cancel workflow: ${l.error.message}
 `)),await a(l.success?0:1)}catch(l){console.error(o.red(`
-Failed to cancel workflow:`),l),await a(1)}}),y.command("browser-list").description("List available browser workflow templates").action(async()=>{try{let{BrowserWorkflowTool:t}=await import("./browser-workflow-K77KPDRF.js"),e=await new t().invoke({});if(e.success&&e.data){console.log(o.blue(`
+Failed to cancel workflow:`),l),await a(1)}}),y.command("browser-list").description("List available browser workflow templates").action(async()=>{try{let{BrowserWorkflowTool:t}=await import("./browser-workflow-PC4N5TKL.js"),e=await new t().invoke({});if(e.success&&e.data){console.log(o.blue(`
  Browser Workflow Templates:
 `));for(let u of e.data.availableTemplates)console.log(`  ${o.cyan(u)}`);console.log("")}else console.log(o.red(`Failed: ${e.error||"Unknown error"}`));await a(0)}catch(t){console.error(o.red(`
-Failed:`),t),await a(1)}}),y.command("browser-load [template]").description("Load and validate a browser workflow template or inline YAML").option("--yaml <yaml>","Inline YAML workflow definition").option("-v, --var <key=value>","Variable override (repeatable)",P,{}).option("-F, --format <format>","Output format (text|json)","text").option("-o, --output <path>","Write output to file").action(async(t,l)=>{try{let{BrowserWorkflowTool:e}=await import("./browser-workflow-K77KPDRF.js"),{writeOutput:u,toJSON:c}=await import("./ci-output-C2PAMUXM.js"),s=new e,f={variables:l.var||{}};if(l.yaml)f.workflowYaml=l.yaml;else if(t)if(t.endsWith(".yaml")||t.endsWith(".yml")){let i=await import("fs"),p=(await import("path")).resolve(t);i.existsSync(p)||(console.log(o.red(`
+Failed:`),t),await a(1)}}),y.command("browser-load [template]").description("Load and validate a browser workflow template or inline YAML").option("--yaml <yaml>","Inline YAML workflow definition").option("-v, --var <key=value>","Variable override (repeatable)",P,{}).option("-F, --format <format>","Output format (text|json)","text").option("-o, --output <path>","Write output to file").action(async(t,l)=>{try{let{BrowserWorkflowTool:e}=await import("./browser-workflow-PC4N5TKL.js"),{writeOutput:u,toJSON:c}=await import("./ci-output-S47BMRYC.js"),s=new e,f={variables:l.var||{}};if(l.yaml)f.workflowYaml=l.yaml;else if(t)if(t.endsWith(".yaml")||t.endsWith(".yml")){let i=await import("fs"),p=(await import("path")).resolve(t);i.existsSync(p)||(console.log(o.red(`
 File not found: ${p}
 `)),await a(1)),f.workflowYaml=i.readFileSync(p,"utf-8")}else f.templateName=t;else console.log(o.red(`
 Provide a template name or --yaml. Use "workflow browser-list" to see templates.

package/dist/cli/chunks/workflow-orchestrator-5CKA6Q74.js

@@ -0,0 +1,2 @@
+import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.8");process.exit(0)}
+import{a,b,c,d}from"./chunk-UAI5NPPQ.js";import"./chunk-76UL224Z.js";import"./chunk-BZB5D4BO.js";import"./chunk-LFEBTWFS.js";import"./chunk-OT4JADWW.js";import"./chunk-CG3HIYF4.js";import"./chunk-VVNR4R22.js";import"./chunk-R2LWLZ3Y.js";import"./chunk-PG7CZ6Q4.js";import"./chunk-IP2Z4Z6X.js";import"./chunk-2V5VKOJ2.js";import"./chunk-HYACMUUR.js";import"./chunk-YOKRSFGA.js";import"./chunk-IHJXFWUL.js";import"./chunk-6DBYVKGA.js";import"./chunk-XVXSQOQG.js";import"./chunk-KJZU3E5G.js";import"./chunk-MVW7AACO.js";import"./chunk-TZMKO6PC.js";import"./chunk-E4D36LGH.js";export{b as DEFAULT_WORKFLOW_CONFIG,a as WorkflowEvents,c as WorkflowOrchestrator,d as createWorkflowOrchestrator};

package/dist/cli/chunks/{wrappers-VGV5RU5Q.js → wrappers-X7WZLBZD.js}

@@ -1,2 +1,2 @@
-import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.6");process.exit(0)}
-import{a,b,c,d,e,f,g,h,i,j,k,l,m,n,o,p,q,r,s,t,u,v as L,w as M,x as N}from"./chunk-5A5ECZCN.js";import"./chunk-SQCNABS4.js";import"./chunk-YV34KLBV.js";import"./chunk-MA7OLK56.js";import"./chunk-BHOJLQLF.js";import{a as v,b as w,c as x,d as y,e as z,f as A,g as B,h as C,i as D,j as E,k as F,l as G,m as H,n as I,o as J,p as K}from"./chunk-LSFJKCAQ.js";import"./chunk-MROCXAXJ.js";import"./chunk-Z5IOTEQI.js";import"./chunk-CU3LGMOK.js";import"./chunk-775KESYW.js";import"./chunk-5AXU6KCI.js";import"./chunk-YQ7X6LKA.js";import"./chunk-5CKG46BM.js";import"./chunk-EJSRKZ5M.js";import"./chunk-SYYGXU7I.js";import"./chunk-V2IUGAJ7.js";import"./chunk-NSRIYP76.js";import"./chunk-N5CEEWWJ.js";export{z as GNNLayerFactory,i as QEFlashAttention,x as QEGNNEmbeddingIndex,y as QEGNNIndexFactory,a as QESONA,e as QE_FLASH_ATTENTION_CONFIG,g as QE_PERFORMANCE_TARGETS,f as QE_SONA_CONFIG,A as TensorCompressionFactory,u as batchComputeAttention,K as batchDifferentiableSearch,M as checkRuvectorPackagesAvailable,c as createDomainQESONA,j as createQEFlashAttention,b as createQESONA,D as getDifferentiableSearch,F as getGetCompressionLevel,E as getHierarchicalForward,G as getInit,h as getOptimalBlockConfig,k as getQEFlashAttentionConfig,n as getRuvectorDotProductAttention,m as getRuvectorFlashAttention,p as getRuvectorHyperbolicAttention,B as getRuvectorLayer,q as getRuvectorLinearAttention,r as getRuvectorMoEAttention,o as getRuvectorMultiHeadAttention,L as getRuvectorPackageVersions,C as getTensorCompress,l as getWorkloadTypes,N as initAllRuvectorPackages,w as initGNN,d as isAttentionAvailable,v as isGNNAvailable,s as toFloat32Array,H as toFloat32ArrayGNN,J as toIEmbedding,t as toNumberArrayAttn,I as toNumberArrayGNN};
+import{createRequire as __cr}from"module";const require=__cr(import.meta.url);if(process.argv.includes('--version')||process.argv.includes('-v')){console.log("3.9.8");process.exit(0)}
+import{a,b,c,d,e,f,g,h,i,j,k,l,m,n,o,p,q,r,s,t,u,v as L,w as M,x as N}from"./chunk-S72TSJS4.js";import"./chunk-BZB5D4BO.js";import"./chunk-LFEBTWFS.js";import"./chunk-OT4JADWW.js";import"./chunk-CG3HIYF4.js";import{a as v,b as w,c as x,d as y,e as z,f as A,g as B,h as C,i as D,j as E,k as F,l as G,m as H,n as I,o as J,p as K}from"./chunk-ECYDMBDA.js";import"./chunk-VVNR4R22.js";import"./chunk-PG7CZ6Q4.js";import"./chunk-2V5VKOJ2.js";import"./chunk-HYACMUUR.js";import"./chunk-YOKRSFGA.js";import"./chunk-IHJXFWUL.js";import"./chunk-6DBYVKGA.js";import"./chunk-XVXSQOQG.js";import"./chunk-KJZU3E5G.js";import"./chunk-MVW7AACO.js";import"./chunk-TZMKO6PC.js";import"./chunk-E4D36LGH.js";export{z as GNNLayerFactory,i as QEFlashAttention,x as QEGNNEmbeddingIndex,y as QEGNNIndexFactory,a as QESONA,e as QE_FLASH_ATTENTION_CONFIG,g as QE_PERFORMANCE_TARGETS,f as QE_SONA_CONFIG,A as TensorCompressionFactory,u as batchComputeAttention,K as batchDifferentiableSearch,M as checkRuvectorPackagesAvailable,c as createDomainQESONA,j as createQEFlashAttention,b as createQESONA,D as getDifferentiableSearch,F as getGetCompressionLevel,E as getHierarchicalForward,G as getInit,h as getOptimalBlockConfig,k as getQEFlashAttentionConfig,n as getRuvectorDotProductAttention,m as getRuvectorFlashAttention,p as getRuvectorHyperbolicAttention,B as getRuvectorLayer,q as getRuvectorLinearAttention,r as getRuvectorMoEAttention,o as getRuvectorMultiHeadAttention,L as getRuvectorPackageVersions,C as getTensorCompress,l as getWorkloadTypes,N as initAllRuvectorPackages,w as initGNN,d as isAttentionAvailable,v as isGNNAvailable,s as toFloat32Array,H as toFloat32ArrayGNN,J as toIEmbedding,t as toNumberArrayAttn,I as toNumberArrayGNN};

package/dist/cli/commands/init.js

@@ -30,7 +30,7 @@ export function createInitCommand() {
         .option('-u, --upgrade', 'Upgrade existing installation (overwrites skills, agents, validation)')
         .option('--minimal', 'Minimal installation (no skills, patterns, or workers)')
         .option('--skip-patterns', 'Skip pattern loading')
-        .option('--skip-code-index', 'Skip code intelligence pre-scan (can be run later via `aqe code index`)')
+        .option('--skip-code-index', 'Skip code intelligence pre-scan (supported escape hatch — KG can be built later via `aqe code index`, also via env AQE_SKIP_CODE_INDEX=1)')
         .option('--with-n8n', 'Include n8n workflow testing platform')
         .option('--with-opencode', 'Include OpenCode agent/skill provisioning')
         .option('--with-kiro', 'Include AWS Kiro IDE integration (agents, skills, hooks, steering)')

package/dist/cli/handlers/init-handler.d.ts

@@ -9,6 +9,12 @@ export declare class InitHandler implements ICommandHandler {
     readonly name = "init";
     readonly description = "Initialize the AQE v3 system";
     private cleanupAndExit;
+    /**
+     * Original `process.stdout.write` captured before --json mode redirects
+     * stdout to stderr. Restored at JSON-emission time. Null when not in
+     * JSON mode.
+     */
+    private originalStdoutWrite;
     constructor(cleanupAndExit: (code: number) => Promise<never>);
     register(program: Command, context: CLIContext): void;
     execute(options: InitOptions, context: CLIContext): Promise<void>;
@@ -18,6 +24,52 @@ export declare class InitHandler implements ICommandHandler {
     private registerDomainWorkflowActions;
     getHelp(): string;
 }
+/**
+ * JSON output schema emitted by `aqe init --json`. Versioned so the
+ * release-gate corpus (tests/fixtures/init-corpus/) and any other
+ * consumers can detect schema drift.
+ *
+ * Schema version 1 — added in response to issue #401 to give the
+ * pre-publish gate a stable, structured contract instead of grepping
+ * stdout for human banners that don't actually reflect phase success.
+ *
+ * IMPORTANT consumer contract: `success` here is the orchestrator's
+ * success flag, which only flips to false on critical-phase failures
+ * or unhandled exceptions. Non-critical phase failures (assets,
+ * code-intelligence, workers, claude-md, hooks, mcp) leave `success`
+ * true. Consumers MUST inspect `steps[*].status` to detect those.
+ * `aqe init --json` itself enforces this stricter contract via its
+ * exit code: it exits non-zero if ANY step has status === 'error',
+ * not just on `success === false`.
+ */
+export interface InitJsonOutput {
+    schemaVersion: 1;
+    success: boolean;
+    steps: Array<{
+        step: string;
+        status: 'success' | 'warning' | 'error' | 'skipped';
+        message: string;
+        durationMs: number;
+    }>;
+    summary: {
+        projectAnalyzed: boolean;
+        configGenerated: boolean;
+        codeIntelligenceIndexed: number;
+        patternsLoaded: number;
+        skillsInstalled: number;
+        agentsInstalled: number;
+        hooksConfigured: boolean;
+        mcpConfigured: boolean;
+        claudeMdGenerated: boolean;
+        workersStarted: number;
+        n8nInstalled?: {
+            agents: number;
+            skills: number;
+        };
+    };
+    totalDurationMs: number;
+    timestamp: string;
+}
 interface InitOptions {
     domains: string;
     maxAgents: string;
@@ -29,6 +81,7 @@ interface InitOptions {
     minimal?: boolean;
     skipPatterns?: boolean;
     skipCodeIndex?: boolean;
+    json?: boolean;
     withN8n?: boolean;
     withOpencode?: boolean;
     withKiro?: boolean;

package/dist/cli/handlers/init-handler.js

@@ -13,6 +13,12 @@ export class InitHandler {
     name = 'init';
     description = 'Initialize the AQE v3 system';
     cleanupAndExit;
+    /**
+     * Original `process.stdout.write` captured before --json mode redirects
+     * stdout to stderr. Restored at JSON-emission time. Null when not in
+     * JSON mode.
+     */
+    originalStdoutWrite = null;
     constructor(cleanupAndExit) {
         this.cleanupAndExit = cleanupAndExit;
     }
@@ -29,7 +35,8 @@ export class InitHandler {
             .option('-u, --upgrade', 'Upgrade existing installation (overwrite skills, agents, validation)')
             .option('--minimal', 'Minimal configuration (skip optional features)')
             .option('--skip-patterns', 'Skip loading pre-trained patterns')
-            .option('--skip-code-index', 'Skip code intelligence pre-scan (run `aqe code index` later)')
+            .option('--skip-code-index', 'Skip code intelligence pre-scan (supported escape hatch — KG can be built later via `aqe code index`, also via env AQE_SKIP_CODE_INDEX=1)')
+            .option('--json', 'Emit machine-readable JSON result on stdout (suppresses banners; phase progress goes to stderr). Used by the release-gate corpus and CI tooling. See InitJsonOutput in init-handler.ts for the schema.')
             .option('--with-n8n', 'Install n8n workflow testing agents and skills')
             .option('--with-opencode', 'Include OpenCode agent/skill provisioning')
             .option('--with-kiro', 'Include AWS Kiro IDE integration (agents, skills, hooks, steering)')
@@ -54,6 +61,19 @@ export class InitHandler {
         });
     }
     async execute(options, context) {
+        // In --json mode we must redirect stdout BEFORE any console.log so
+        // that banners printed in this function don't pollute the JSON-only
+        // stdout contract. The original write fn is captured on `this` so
+        // runModularInit can restore it before emitting the final JSON. See
+        // InitJsonOutput for the schema.
+        if (options.json === true) {
+            this.originalStdoutWrite = process.stdout.write.bind(process.stdout);
+            // eslint-disable-next-line @typescript-eslint/no-explicit-any
+            const stderrWrite = process.stderr.write.bind(process.stderr);
+            process.stdout.write = ((...args) => {
+                return stderrWrite(...args);
+            });
+        }
         try {
             // Expand --with-all-platforms into individual flags
             if (options.withAllPlatforms) {
@@ -90,7 +110,8 @@ export class InitHandler {
             await this.cleanupAndExit(1);
         }
     }
-    async runModularInit(options, context) {
+    async runModularInit(options, _context) {
+        const isJsonMode = options.json === true;
         const { createModularInitOrchestrator } = await import('../../init/orchestrator.js');
         const orchestrator = createModularInitOrchestrator({
             projectRoot: process.cwd(),
@@ -115,6 +136,35 @@ export class InitHandler {
         });
         console.log(chalk.white('  Analyzing project...\n'));
         const result = await orchestrator.initialize();
+        // JSON mode: emit structured output and exit. Skip Claude Flow
+        // integration and human banners — those are for interactive runs.
+        if (isJsonMode) {
+            // Restore the real stdout captured in execute() before any banners
+            // were printed.
+            if (this.originalStdoutWrite) {
+                process.stdout.write = this.originalStdoutWrite;
+            }
+            const jsonOutput = {
+                schemaVersion: 1,
+                success: result.success,
+                steps: result.steps.map((s) => ({
+                    step: s.step,
+                    status: s.status,
+                    message: s.message,
+                    durationMs: s.durationMs,
+                })),
+                summary: result.summary,
+                totalDurationMs: result.totalDurationMs,
+                timestamp: result.timestamp.toISOString(),
+            };
+            process.stdout.write(JSON.stringify(jsonOutput, null, 2) + '\n');
+            // Exit non-zero if EITHER critical failure OR any step errored.
+            // This is stricter than `result.success` and is the contract the
+            // gate relies on.
+            const anyStepErrored = result.steps.some((s) => s.status === 'error');
+            await this.cleanupAndExit(result.success && !anyStepErrored ? 0 : 1);
+            return;
+        }
         // Display step results
         for (const step of result.steps) {
             const statusIcon = step.status === 'success' ? '*' : step.status === 'error' ? 'x' : '!';
@@ -184,7 +234,7 @@ export class InitHandler {
         }
         await this.cleanupAndExit(0);
     }
-    async runLegacyWizard(options, context) {
+    async runLegacyWizard(options, _context) {
         const { InitOrchestrator } = await import('../../init/init-wizard.js');
         const orchestratorOptions = {
             projectRoot: process.cwd(),

package/dist/init/phases/06-code-intelligence.d.ts

@@ -23,16 +23,21 @@ export declare class CodeIntelligencePhase extends BasePhase<CodeIntelligenceRes
     readonly critical = false;
     readonly requiresPhases: readonly ["database"];
     /**
-     * Opt-out gate: v3.9.4 escape hatch for users whose code intelligence
-     * pre-scan stalls on native calls that the phase-level watchdog can't
-     * interrupt (because Node's event loop is blocked inside synchronous
-     * NAPI code). Setting `AQE_SKIP_CODE_INDEX=1` or passing
-     * `--skip-code-index` to `aqe init` bypasses this phase entirely.
-     * Lazy on-demand indexing still works when the user runs
-     * `aqe code index` or `aqe memory search` afterwards.
+     * Opt-out gate: permanent supported escape hatch for the code intelligence
+     * pre-scan. Setting `AQE_SKIP_CODE_INDEX=1` or passing `--skip-code-index`
+     * to `aqe init` bypasses this phase entirely. Lazy on-demand indexing
+     * still works afterwards via `aqe code index` or `aqe memory search`.
      *
-     * See https://github.com/proffesor-for-testing/agentic-qe/issues/XXX
-     * for the tracking issue on the proper killable-worker fix.
+     * History:
+     *   - Added in v3.9.4 as an emergency escape hatch when `@ruvector/router`
+     *     deadlocked on certain inputs (issue #401).
+     *   - In v3.9.6 the deadlocking dependency was replaced by `hnswlib-node`
+     *     (ADR-090) and the original deadlock no longer reproduces.
+     *   - The flag is kept as a permanent supported option, not a temporary
+     *     workaround. The release-gate corpus at
+     *     `tests/fixtures/init-corpus/` is the load-bearing prevention layer
+     *     for future regressions; this flag is the user-facing break-glass
+     *     for the case where the corpus misses something in the wild.
      */
     shouldRun(context: InitContext): Promise<boolean>;
     protected run(context: InitContext): Promise<CodeIntelligenceResult>;

package/dist/init/phases/06-code-intelligence.js

@@ -67,16 +67,21 @@ export class CodeIntelligencePhase extends BasePhase {
     critical = false;
     requiresPhases = ['database'];
     /**
-     * Opt-out gate: v3.9.4 escape hatch for users whose code intelligence
-     * pre-scan stalls on native calls that the phase-level watchdog can't
-     * interrupt (because Node's event loop is blocked inside synchronous
-     * NAPI code). Setting `AQE_SKIP_CODE_INDEX=1` or passing
-     * `--skip-code-index` to `aqe init` bypasses this phase entirely.
-     * Lazy on-demand indexing still works when the user runs
-     * `aqe code index` or `aqe memory search` afterwards.
+     * Opt-out gate: permanent supported escape hatch for the code intelligence
+     * pre-scan. Setting `AQE_SKIP_CODE_INDEX=1` or passing `--skip-code-index`
+     * to `aqe init` bypasses this phase entirely. Lazy on-demand indexing
+     * still works afterwards via `aqe code index` or `aqe memory search`.
      *
-     * See https://github.com/proffesor-for-testing/agentic-qe/issues/XXX
-     * for the tracking issue on the proper killable-worker fix.
+     * History:
+     *   - Added in v3.9.4 as an emergency escape hatch when `@ruvector/router`
+     *     deadlocked on certain inputs (issue #401).
+     *   - In v3.9.6 the deadlocking dependency was replaced by `hnswlib-node`
+     *     (ADR-090) and the original deadlock no longer reproduces.
+     *   - The flag is kept as a permanent supported option, not a temporary
+     *     workaround. The release-gate corpus at
+     *     `tests/fixtures/init-corpus/` is the load-bearing prevention layer
+     *     for future regressions; this flag is the user-facing break-glass
+     *     for the case where the corpus misses something in the wild.
      */
     async shouldRun(context) {
         const envSkip = process.env.AQE_SKIP_CODE_INDEX;
@@ -183,21 +188,37 @@ export class CodeIntelligencePhase extends BasePhase {
      * indexer is — and, if a timeout fires, which file was responsible.
      */
     async runCodeIntelligenceScan(projectRoot, context, incremental, changedFiles) {
+        // NOTE: this method intentionally does NOT swallow errors. Earlier
+        // versions caught everything and returned `{status:'skipped', entries:0}`,
+        // which produced a SUCCESSFUL phase result with hidden failure semantics
+        // — init reported "AQE v3 initialized successfully" while the KG was
+        // empty and the release-gate corpus had nothing to assert against. We
+        // now let exceptions propagate to BasePhase.execute(), which converts
+        // them to `{success:false, error}`. Phase 06 remains `critical: false`,
+        // so init still completes; the difference is that `result.steps[]`
+        // contains an entry with `status='error'` that the gate (and `--json`
+        // consumers) can detect. See issue #401 part-3 devils-advocate review.
+        //
+        // The cleanup of `kgService` and `memory` was previously leaked when
+        // any throw happened — the catch returned skipped without closing
+        // handles, leaving better-sqlite3 + hnswlib-node native resources
+        // dangling. The try/finally below fixes that leak as a side effect of
+        // dropping the swallow-everything catch.
+        const { KnowledgeGraphService } = await import('../../domains/code-intelligence/services/knowledge-graph.js');
+        const dbPath = join(projectRoot, '.agentic-qe', 'memory.db');
+        const memoryConfig = {
+            type: 'sqlite',
+            sqlite: {
+                path: dbPath,
+                walMode: true,
+            },
+        };
+        const { backend: memory } = await createMemoryBackend(memoryConfig, true);
+        const kgService = new KnowledgeGraphService(memory, {
+            namespace: 'code-intelligence:kg',
+            enableVectorEmbeddings: true,
+        });
         try {
-            const { KnowledgeGraphService } = await import('../../domains/code-intelligence/services/knowledge-graph.js');
-            const dbPath = join(projectRoot, '.agentic-qe', 'memory.db');
-            const memoryConfig = {
-                type: 'sqlite',
-                sqlite: {
-                    path: dbPath,
-                    walMode: true,
-                },
-            };
-            const { backend: memory } = await createMemoryBackend(memoryConfig, true);
-            const kgService = new KnowledgeGraphService(memory, {
-                namespace: 'code-intelligence:kg',
-                enableVectorEmbeddings: true,
-            });
             let filesToIndex;
             if (changedFiles) {
                 filesToIndex = changedFiles;
@@ -216,8 +237,6 @@ export class CodeIntelligencePhase extends BasePhase {
             // Race the whole scan against a phase-level watchdog. If the cap
             // fires, we stop eating files and report how far we got.
             const scanResult = await this.runBoundedScan(kgService, filesToIndex, incremental, context);
-            kgService.destroy();
-            await memory.dispose();
             if (scanResult.status === 'timeout') {
                 context.services.warn(`  ⚠ Code intelligence pre-scan exceeded ${PHASE_TIMEOUT_MS / 1000}s phase cap. ` +
                     `Indexed ${scanResult.entries} entries before timeout. ` +
@@ -235,9 +254,19 @@ export class CodeIntelligencePhase extends BasePhase {
             }
             return scanResult;
         }
-        catch (error) {
-            context.services.warn(`Code intelligence scan warning: ${error}`);
-            return { status: 'skipped', entries: 0 };
+        finally {
+            // Always release native handles, even on throw. Otherwise the
+            // better-sqlite3 + hnswlib-node + KG service handles leak across
+            // phases, which can cause "database is locked" or stale-connection
+            // failures in subsequent init phases or in `aqe code index` runs.
+            try {
+                kgService.destroy();
+            }
+            catch { /* best-effort */ }
+            try {
+                await memory.dispose();
+            }
+            catch { /* best-effort */ }
         }
     }
     /**
@@ -285,6 +314,12 @@ export class CodeIntelligencePhase extends BasePhase {
             // hang no longer reproduces. The between-file timeout check and
             // the AQE_SKIP_CODE_INDEX escape hatch are kept as defense in
             // depth against future native-code stalls.
+            //
+            // The load-bearing prevention layer for new init regressions is the
+            // release-gate corpus at tests/fixtures/init-corpus/ which runs
+            // `aqe init --auto` against pinned real public repos (including the
+            // v3.9.4 regression file `examples/ruview_live.py` from RuView)
+            // before every npm publish. See issue #401 for the post-mortem.
             if (Date.now() - startedAt > PHASE_TIMEOUT_MS) {
                 timedOut = true;
                 break;

package/dist/init/phases/phase-interface.d.ts

@@ -71,12 +71,24 @@ export interface InitOptions {
     /** Skip pattern loading */
     skipPatterns?: boolean;
     /**
-     * Skip the code intelligence pre-scan phase (fix/init-v3-9-4 escape hatch).
+     * Skip the code intelligence pre-scan phase.
      *
      * Set this via `--skip-code-index` on `aqe init` or `AQE_SKIP_CODE_INDEX=1`
-     * in the environment. Useful when the KG indexer stalls on a specific
-     * native call that the phase-level watchdog can't interrupt. Users can
-     * still build the KG later with `aqe code index`.
+     * in the environment. The KG can be built later via `aqe code index`.
+     *
+     * Originally added in v3.9.4 as an emergency escape hatch for the
+     * `@ruvector/router` deadlock (issue #401). The dependency was replaced
+     * by `hnswlib-node` in v3.9.6 (ADR-090) and the original deadlock no
+     * longer reproduces, but this flag is kept as a permanent supported
+     * defense-in-depth option:
+     *
+     *   - Phase 06 still runs on the Node main thread, so any future
+     *     synchronous native call inside the indexer could in principle
+     *     freeze the event loop where the per-file `setTimeout` watchdog
+     *     can't interrupt it.
+     *   - The `tests/fixtures/init-corpus` release gate is the load-bearing
+     *     prevention layer, but the flag stays as a user-facing break-glass
+     *     for the case where verification misses something in the wild.
      */
     skipCodeIndex?: boolean;
     /** Minimal configuration (no skills, patterns, workers) */