trybeacon 0.1.38 → 0.1.40

package/dist/bin/plan.js

@@ -1,6 +1,6 @@
 #!/usr/bin/env bun
 // @bun
-var uZ=Object.defineProperty;var FZ=(Q)=>Q;function RZ(Q,Z){this[Q]=FZ.bind(null,Z)}var JQ=(Q,Z)=>{for(var $ in Z)uZ(Q,$,{get:Z[$],enumerable:!0,configurable:!0,set:RZ.bind(Z,$)})};var T=(Q,Z)=>()=>(Q&&(Z=Q(Q=0)),Z);var XQ={};JQ(XQ,{removeRepoAssets:()=>yZ,installRefreshSkill:()=>fZ,installPlanSkill:()=>bZ,installInitSkill:()=>wZ,installCodexRepoSkills:()=>AZ,ensureWorkflowDoc:()=>EZ,ensureMcp:()=>DZ,auditRepo:()=>OZ,REFRESH_SKILL:()=>zQ,PLAN_SKILL:()=>OQ,INIT_SKILL:()=>VQ});import{existsSync as v,mkdirSync as A,readFileSync as G,rmSync as I,writeFileSync as H}from"fs";import{join as U}from"path";function wZ(Q){let Z=U(Q,".claude","skills","beacon-init");A(Z,{recursive:!0});let $=U(Z,"SKILL.md");return H($,VQ),$}function fZ(Q){let Z=U(Q,".claude","skills","beacon-refresh");A(Z,{recursive:!0});let $=U(Z,"SKILL.md");return H($,zQ),$}function bZ(Q){let Z=U(Q,".claude","skills","beacon-plan");A(Z,{recursive:!0});let $=U(Z,"SKILL.md");return H($,OQ),$}function AZ(Q){let Z=[];for(let $ of IZ){let Y=U(Q,".agents","skills",$.name);A(Y,{recursive:!0});let J=U(Y,"SKILL.md");H(J,$.body()),Z.push(J)}return Z}function EZ(Q){let Z=U(Q,"AGENTS.md"),$="";try{$=G(Z,"utf8")}catch{}let Y=new RegExp(`${E}[\\s\\S]*?${qQ}`);$=Y.test($)?$.replace(Y,DQ):`${$.trim()}
+var FZ=Object.defineProperty;var uZ=(Q)=>Q;function RZ(Q,Z){this[Q]=uZ.bind(null,Z)}var JQ=(Q,Z)=>{for(var $ in Z)FZ(Q,$,{get:Z[$],enumerable:!0,configurable:!0,set:RZ.bind(Z,$)})};var T=(Q,Z)=>()=>(Q&&(Z=Q(Q=0)),Z);var XQ={};JQ(XQ,{removeRepoAssets:()=>yZ,installRefreshSkill:()=>IZ,installPlanSkill:()=>bZ,installInitSkill:()=>wZ,installCodexRepoSkills:()=>AZ,ensureWorkflowDoc:()=>EZ,ensureMcp:()=>DZ,auditRepo:()=>OZ,REFRESH_SKILL:()=>zQ,PLAN_SKILL:()=>OQ,INIT_SKILL:()=>VQ});import{existsSync as v,mkdirSync as A,readFileSync as G,rmSync as f,writeFileSync as H}from"fs";import{join as U}from"path";function wZ(Q){let Z=U(Q,".claude","skills","beacon-init");A(Z,{recursive:!0});let $=U(Z,"SKILL.md");return H($,VQ),$}function IZ(Q){let Z=U(Q,".claude","skills","beacon-refresh");A(Z,{recursive:!0});let $=U(Z,"SKILL.md");return H($,zQ),$}function bZ(Q){let Z=U(Q,".claude","skills","beacon-plan");A(Z,{recursive:!0});let $=U(Z,"SKILL.md");return H($,OQ),$}function AZ(Q){let Z=[];for(let $ of fZ){let Y=U(Q,".agents","skills",$.name);A(Y,{recursive:!0});let J=U(Y,"SKILL.md");H(J,$.body()),Z.push(J)}return Z}function EZ(Q){let Z=U(Q,"AGENTS.md"),$="";try{$=G(Z,"utf8")}catch{}let Y=new RegExp(`${E}[\\s\\S]*?${qQ}`);$=Y.test($)?$.replace(Y,DQ):`${$.trim()}
 
 ${DQ}
 `.trimStart(),H(Z,$.endsWith(`
@@ -9,13 +9,13 @@ ${DQ}
 
 `:""}@AGENTS.md
 `)}function DZ(Q){let Z=U(Q,".mcp.json"),$={};try{$=JSON.parse(G(Z,"utf8"))}catch{}if($.mcpServers=$.mcpServers??{},$.mcpServers.beacon)return{path:Z,added:!1};return $.mcpServers.beacon={command:"beacon",args:["mcp"]},H(Z,JSON.stringify($,null,2)+`
-`),{path:Z,added:!0}}function OZ(Q){let Z=U(Q,".mcp.json"),$=!1;try{$=!!JSON.parse(G(Z,"utf8")).mcpServers?.beacon}catch{}let Y=!1;try{Y=G(U(Q,"AGENTS.md"),"utf8").includes(E)}catch{}let J=!1;try{J=/@AGENTS\.md/.test(G(U(Q,"CLAUDE.md"),"utf8"))}catch{}return{repo:Q,mcpRegistered:$,agentsMdBlock:Y,claudeMdImport:J,skills:{"beacon-init":v(U(Q,".claude","skills","beacon-init","SKILL.md")),"beacon-refresh":v(U(Q,".claude","skills","beacon-refresh","SKILL.md"))},codexSkills:{"beacon-init":v(U(Q,".agents","skills","beacon-init","SKILL.md")),"beacon-refresh":v(U(Q,".agents","skills","beacon-refresh","SKILL.md"))}}}function yZ(Q){let Z=[];for(let z of["beacon-init","beacon-refresh","beacon-db-design"]){let W=U(Q,".claude","skills",z);if(v(W))I(W,{recursive:!0,force:!0}),Z.push(z)}for(let z of["beacon-init","beacon-refresh"]){let W=U(Q,".agents","skills",z);if(v(W))I(W,{recursive:!0,force:!0}),Z.push(`codex:${z}`)}let $=!1,Y=U(Q,".mcp.json");try{let z=JSON.parse(G(Y,"utf8"));if(z.mcpServers?.beacon){if(delete z.mcpServers.beacon,$=!0,z.mcpServers&&Object.keys(z.mcpServers).length===0)delete z.mcpServers;if(Object.keys(z).length===0)I(Y,{force:!0});else H(Y,JSON.stringify(z,null,2)+`
+`),{path:Z,added:!0}}function OZ(Q){let Z=U(Q,".mcp.json"),$=!1;try{$=!!JSON.parse(G(Z,"utf8")).mcpServers?.beacon}catch{}let Y=!1;try{Y=G(U(Q,"AGENTS.md"),"utf8").includes(E)}catch{}let J=!1;try{J=/@AGENTS\.md/.test(G(U(Q,"CLAUDE.md"),"utf8"))}catch{}return{repo:Q,mcpRegistered:$,agentsMdBlock:Y,claudeMdImport:J,skills:{"beacon-init":v(U(Q,".claude","skills","beacon-init","SKILL.md")),"beacon-refresh":v(U(Q,".claude","skills","beacon-refresh","SKILL.md"))},codexSkills:{"beacon-init":v(U(Q,".agents","skills","beacon-init","SKILL.md")),"beacon-refresh":v(U(Q,".agents","skills","beacon-refresh","SKILL.md"))}}}function yZ(Q){let Z=[];for(let z of["beacon-init","beacon-refresh","beacon-db-design"]){let W=U(Q,".claude","skills",z);if(v(W))f(W,{recursive:!0,force:!0}),Z.push(z)}for(let z of["beacon-init","beacon-refresh"]){let W=U(Q,".agents","skills",z);if(v(W))f(W,{recursive:!0,force:!0}),Z.push(`codex:${z}`)}let $=!1,Y=U(Q,".mcp.json");try{let z=JSON.parse(G(Y,"utf8"));if(z.mcpServers?.beacon){if(delete z.mcpServers.beacon,$=!0,z.mcpServers&&Object.keys(z.mcpServers).length===0)delete z.mcpServers;if(Object.keys(z).length===0)f(Y,{force:!0});else H(Y,JSON.stringify(z,null,2)+`
 `)}}catch{}let J=!1,V=U(Q,"AGENTS.md");try{let z=G(V,"utf8"),W=new RegExp(`\\n?${E}[\\s\\S]*?${qQ}\\n?`);if(W.test(z)){let M=z.replace(W,`
 `).replace(/\n{3,}/g,`
 
 `).trimStart();H(V,M.endsWith(`
 `)?M:`${M}
-`),J=!0}}catch{}let X=!1,q=U(Q,"CLAUDE.md");try{let z=G(q,"utf8"),W=z.replace(/^[ \t]*@AGENTS\.md[ \t]*\n?/m,"");if(W!==z){if(!W.trim())I(q,{force:!0});else H(q,W);X=!0}}catch{}return{skillsRemoved:Z,mcpUnregistered:$,agentsBlockRemoved:J,claudeImportRemoved:X}}var VQ=`---
+`),J=!0}}catch{}let q=!1,X=U(Q,"CLAUDE.md");try{let z=G(X,"utf8"),W=z.replace(/^[ \t]*@AGENTS\.md[ \t]*\n?/m,"");if(W!==z){if(!W.trim())f(X,{force:!0});else H(X,W);q=!0}}catch{}return{skillsRemoved:Z,mcpUnregistered:$,agentsBlockRemoved:J,claudeImportRemoved:q}}var VQ=`---
 name: beacon-init
 description: Read this repository and map its architecture, schema, and roadmap into Beacon (the local visual planning panel). Use when the user runs /beacon-init, asks to "set up Beacon for this repo", or asks to initialize/bootstrap Beacon's map of this codebase.
 ---
@@ -29,6 +29,7 @@ The user already has Beacon running. You're going to map this repository's archi
 A single \`beacon_init_persist\` MCP tool call with:
 
 - **hasFrontend**: \`true\` or \`false\` \u2014 does this repo have a frontend surface (UI code)? You just read the repo, so you know. Set it explicitly; it gates the frontend/backend \`layer\` distinction on the boards (a pure-backend repo never shows it).
+- **classificationRoots** (optional): the top-level directories whose immediate children are the meaningful groups on the Files canvas \u2014 e.g. \`["frontend", "backend/app"]\`. The canvas groups files ONE level below each root (so \`frontend\` \u2192 \`frontend/components\`, \`frontend/app\`, \u2026). Pick the dir sitting directly ABOVE the real package dirs \u2014 use \`frontend/src\` if there's a \`src/\` wrapper. List both sides of a monorepo so neither collapses into one flat blob. Not every dir \u2014 just where grouping should START. Omit it for a simple single-root repo; the canvas falls back to automatic grouping.
 - **components**: 8\u201325 main building blocks of this codebase. NOT every file. Group them by \`domain\` (short UPPERCASE: AUTH, API, DATA, UI, JOBS, INFRA, BILLING, SEARCH, \u2026). For each: a one-line technical \`role\`, a one-sentence plain-language \`plain\`, the few \`files\` that implement it (repo-relative), \`depends\` listing other component titles it relies on \u2014 and, when \`hasFrontend\` is true, \`layer\` (\`"frontend" | "backend" | "fullstack"\`). Use the dependency graph you can see in the source \u2014 files that import each other heavily usually belong together. If you spot a bug or something worth investigating while reading a component's code, add \`bugs: [{ note }]\` to that component \u2014 it renders as a bug flag on the node (attributed to the agent). Only flag what you actually saw in the code; don't speculate.
 - **roadmap**: 3\u20136 BROAD strategic directions. Big-picture themes only \u2014 "Harden auth & security", "Add observability", "Scale the data layer", "Pay down test-coverage debt". NOT detailed tasks. NOT file-level. Each gets a short title and one-line \`why\`. If one of them is a concrete BUG to fix (something broken you saw in the code), add \`kind: "BUG"\` so it renders as a typed bug card. When \`hasFrontend\` is true, give each a \`layer\` too (\`"frontend" | "backend" | "fullstack"\`).
 - **overview**: one paragraph describing what this project is and its stack. This lands in AGENTS.md as the project intro.
@@ -88,7 +89,7 @@ The one caveat: if the user manually edited an INIT-source node on the canvas (e
    - **~ changed**: COMPONENT_X (role expanded to cover Y)
    - **schema**: + 2 new tables (TableA, TableB); + 3 new endpoints; \u2212 1 deprecated endpoint
    No need to wait for confirmation \u2014 just show the diff so the user sees what's about to land.
-5. **Call \`beacon_init_persist\`** ONCE with the refreshed full analysis (same shape as init: \`components\`, \`roadmap\`, \`overview\`, \`conventions\`, \`snapshot\`, \`hasFrontend\` \u2014 re-assert it, the stack may have changed). It replaces all init-source nodes and regenerates \`AGENTS.md\`. Bug flags already on a component survive the refresh (they're carried over by title); add \`bugs: [{ note }]\` for anything NEW you found worth investigating \u2014 identical open flags are not duplicated.
+5. **Call \`beacon_init_persist\`** ONCE with the refreshed full analysis (same shape as init: \`components\`, \`roadmap\`, \`overview\`, \`conventions\`, \`snapshot\`, \`hasFrontend\` \u2014 re-assert it, the stack may have changed; and \`classificationRoots\` if the Files-canvas grouping needs to change, e.g. a new top-level dir like \`mobile/\` \u2014 OMIT it to keep the existing roots, don't pass \`[]\` unless you mean to clear them). It replaces all init-source nodes and regenerates \`AGENTS.md\`. Bug flags already on a component survive the refresh (they're carried over by title); add \`bugs: [{ note }]\` for anything NEW you found worth investigating \u2014 identical open flags are not duplicated.
 
 ## What you should NOT do
 
@@ -142,7 +143,7 @@ If it returns feedback, revise and call it again.
 If \`beacon_present_plan\` isn't available, the panel isn't wired here \u2014 fall back to ExitPlanMode
 with the same \`\`\`beacon block (Claude Code only; Codex has no ExitPlanMode), or tell the user to
 run \`beacon\` in this repo once.
-`,IZ,E="<!-- beacon:workflow:start -->",qQ="<!-- beacon:workflow:end -->",DQ;var UQ=T(()=>{IZ=[{name:"beacon-init",body:()=>VQ},{name:"beacon-refresh",body:()=>zQ}];DQ=`${E}
+`,fZ,E="<!-- beacon:workflow:start -->",qQ="<!-- beacon:workflow:end -->",DQ;var UQ=T(()=>{fZ=[{name:"beacon-init",body:()=>VQ},{name:"beacon-refresh",body:()=>zQ}];DQ=`${E}
 ## Beacon \u2014 feature workflow
 
 This project uses Beacon (a local planning/visualization panel; run \`beacon\` to open it). When you start work on a FEATURE \u2014 whether referenced via an \`@beacon:feature://\u2026\` mention, an \`@beacon:note://\u2026\` note the user wrote in the Notes panel (treat its checkbox \`- [ ]\` todos as subtasks and order features by their dependencies), or just described in chat \u2014 follow these steps in order:
@@ -201,9 +202,9 @@ If the feature added or materially changed a REAL architectural component (a sub
 
 Pull raw planning data anytime with \`beacon_entities\` (features / architecture / tables / endpoints).
 ${qQ}`});import{existsSync as yQ,mkdirSync as WQ,readFileSync as O,rmSync as LZ,writeFileSync as y}from"fs";import{dirname as LQ,join as D}from"path";function BQ(Q){try{return JSON.parse(O(Q,"utf8"))}catch{return{}}}function kQ(Q,Z){WQ(LQ(Q),{recursive:!0}),y(Q,JSON.stringify(Z,null,2)+`
-`)}function k(Q,Z){let $=BQ(Q);$.hooks=$.hooks??{},$.hooks[Z.event]=$.hooks[Z.event]??[];let Y=$.hooks[Z.event];if(Y.some((V)=>V.matcher===Z.matcher&&V.hooks?.some((X)=>X.command===Z.command)))return!1;return Y.push({matcher:Z.matcher,hooks:[{type:"command",command:Z.command}]}),kQ(Q,$),!0}function _(Q,Z){return(BQ(Q).hooks?.[Z.event]??[]).some((J)=>J.hooks?.some((V)=>V.command===Z.command))}function S(Q,Z){let $=BQ(Q),Y=$.hooks?.[Z.event];if(!Y)return!1;let J=!1,V=Y.map((X)=>{let q=X.hooks?.length??0,z=(X.hooks??[]).filter((W)=>W.command!==Z.command);if(z.length!==q)J=!0;return{...X,hooks:z}}).filter((X)=>(X.hooks??[]).length>0);if(!J)return!1;if(V.length)$.hooks[Z.event]=V;else delete $.hooks[Z.event];if($.hooks&&Object.keys($.hooks).length===0)delete $.hooks;return kQ(Q,$),!0}function h(Q,Z,$,Y){let J=`${Z}
+`)}function k(Q,Z){let $=BQ(Q);$.hooks=$.hooks??{},$.hooks[Z.event]=$.hooks[Z.event]??[];let Y=$.hooks[Z.event];if(Y.some((V)=>V.matcher===Z.matcher&&V.hooks?.some((q)=>q.command===Z.command)))return!1;return Y.push({matcher:Z.matcher,hooks:[{type:"command",command:Z.command}]}),kQ(Q,$),!0}function _(Q,Z){return(BQ(Q).hooks?.[Z.event]??[]).some((J)=>J.hooks?.some((V)=>V.command===Z.command))}function S(Q,Z){let $=BQ(Q),Y=$.hooks?.[Z.event];if(!Y)return!1;let J=!1,V=Y.map((q)=>{let X=q.hooks?.length??0,z=(q.hooks??[]).filter((W)=>W.command!==Z.command);if(z.length!==X)J=!0;return{...q,hooks:z}}).filter((q)=>(q.hooks??[]).length>0);if(!J)return!1;if(V.length)$.hooks[Z.event]=V;else delete $.hooks[Z.event];if($.hooks&&Object.keys($.hooks).length===0)delete $.hooks;return kQ(Q,$),!0}function h(Q,Z,$,Y){let J=`${Z}
 ${Y.trim()}
-${$}`,V="";try{V=O(Q,"utf8")}catch{}let X=new RegExp(`${Z}[\\s\\S]*?${$}`);V=X.test(V)?V.replace(X,J):V.trim()?`${V.trim()}
+${$}`,V="";try{V=O(Q,"utf8")}catch{}let q=new RegExp(`${Z}[\\s\\S]*?${$}`);V=q.test(V)?V.replace(q,J):V.trim()?`${V.trim()}
 
 ${J}
 `:`${J}
@@ -211,7 +212,7 @@ ${J}
 `)?V:`${V}
 `)}function g(Q,Z){try{return O(Q,"utf8").includes(Z)}catch{return!1}}function m(Q,Z,$){let Y="";try{Y=O(Q,"utf8")}catch{return!1}let J=new RegExp(`${Z}[\\s\\S]*?${$}\\n?`);if(!J.test(Y))return!1;let V=Y.replace(J,"").replace(/\n{3,}/g,`
 
-`).trimStart();return y(Q,V),!0}function p(Q,Z,$){let Y=D(Q,Z);WQ(Y,{recursive:!0});let J=D(Y,"SKILL.md");return y(J,$),J}function u(Q,Z){return yQ(D(Q,Z,"SKILL.md"))}function c(Q,Z){let $=D(Q,Z);if(!yQ($))return!1;return LZ($,{recursive:!0,force:!0}),!0}var x,L=`## Beacon (visual planning panel)
+`).trimStart();return y(Q,V),!0}function p(Q,Z,$){let Y=D(Q,Z);WQ(Y,{recursive:!0});let J=D(Y,"SKILL.md");return y(J,$),J}function F(Q,Z){return yQ(D(Q,Z,"SKILL.md"))}function c(Q,Z){let $=D(Q,Z);if(!yQ($))return!1;return LZ($,{recursive:!0,force:!0}),!0}var x,L=`## Beacon (visual planning panel)
 
 This machine has Beacon installed \u2014 a local visual planning surface for the terminal-side
 agent. Beacon proposes feature plans (roadmap features + DB schema + endpoints) via MCP,
@@ -232,24 +233,24 @@ the user reviews on a canvas at /plan, and feedback flows back as the next round
 Feedback bundles inline annotations on the markdown PLUS any edits the user made directly
 on the /map and /db boards (added features, attached subtasks, edited columns, new
 endpoints). Treat board edits as the user's revision intent \u2014 re-propose matching them
-verbatim. Do NOT implement until the tool returns approval.`;var HQ=T(()=>{x=["beacon-init","beacon-refresh","beacon-plan"]});import{mkdirSync as kZ,renameSync as _Z,rmSync as SZ,writeFileSync as hZ}from"fs";import{dirname as mZ}from"path";function l(Q,Z){kZ(mZ(Q),{recursive:!0});let $=`${Q}.tmp`;try{hZ($,Z),_Z($,Q)}catch(Y){throw SZ($,{force:!0}),Y}}function X1(Q,Z,$=!1){l(Q,JSON.stringify(Z,null,$?2:void 0))}var _Q=()=>{};var nQ={};JQ(nQ,{setupCodexAssets:()=>dZ,removeCodexMcp:()=>dQ,removeCodexArtifacts:()=>aZ,hasCodexMcp:()=>PQ,ensureCodexMcp:()=>lQ,codexMcpProblem:()=>lZ,codexDetected:()=>mQ,auditCodex:()=>nZ,CODEX_HOOKS:()=>t});import{readFileSync as s}from"fs";import{homedir as pZ}from"os";import{join as w}from"path";function SQ(){return process.env.HOME||process.env.USERPROFILE||pZ()}function mQ(){if(process.env.BEACON_CODEX==="1")return!0;if(process.env.BEACON_CODEX==="0")return!1;if(jQ===void 0)jQ=Bun.which("codex")!==null;return jQ}function R(Q){try{return Bun.TOML.parse(Q)}catch{return null}}function PQ(){try{return Boolean(R(s(C(),"utf8"))?.mcp_servers?.beacon)}catch{return!1}}function lZ(){let Q="";try{Q=s(C(),"utf8")}catch{return null}let Z=R(Q);if(!Z)return`~/.codex/config.toml does not parse \u2014 ${F}`;if(Z.mcp_servers?.beacon)return null;if(/^\s*mcp_servers\s*=/m.test(Q))return`mcp_servers is an inline table \u2014 ${F}`;return null}function lQ(){let Q="",Z=!1;try{Q=s(C(),"utf8"),Z=!0}catch{}if(Z){let V=R(Q);if(!V)return{added:!1,error:`~/.codex/config.toml does not parse \u2014 ${F}`};if(V.mcp_servers?.beacon)return{added:!1};if(/^\s*mcp_servers\s*=/m.test(Q))return{added:!1,error:`mcp_servers is an inline table \u2014 ${F}`}}let $=!Q?"":Q.endsWith(`
+verbatim. Do NOT implement until the tool returns approval.`;var HQ=T(()=>{x=["beacon-init","beacon-refresh","beacon-plan"]});import{mkdirSync as kZ,renameSync as _Z,rmSync as SZ,writeFileSync as hZ}from"fs";import{dirname as mZ}from"path";function l(Q,Z){kZ(mZ(Q),{recursive:!0});let $=`${Q}.tmp`;try{hZ($,Z),_Z($,Q)}catch(Y){throw SZ($,{force:!0}),Y}}function H1(Q,Z,$=!1){l(Q,JSON.stringify(Z,null,$?2:void 0))}var _Q=()=>{};var nQ={};JQ(nQ,{setupCodexAssets:()=>dZ,removeCodexMcp:()=>dQ,removeCodexArtifacts:()=>aZ,hasCodexMcp:()=>PQ,ensureCodexMcp:()=>lQ,codexMcpProblem:()=>lZ,codexDetected:()=>mQ,auditCodex:()=>nZ,CODEX_HOOKS:()=>t});import{readFileSync as s}from"fs";import{homedir as pZ}from"os";import{join as w}from"path";function SQ(){return process.env.HOME||process.env.USERPROFILE||pZ()}function mQ(){if(process.env.BEACON_CODEX==="1")return!0;if(process.env.BEACON_CODEX==="0")return!1;if(jQ===void 0)jQ=Bun.which("codex")!==null;return jQ}function R(Q){try{return Bun.TOML.parse(Q)}catch{return null}}function PQ(){try{return Boolean(R(s(C(),"utf8"))?.mcp_servers?.beacon)}catch{return!1}}function lZ(){let Q="";try{Q=s(C(),"utf8")}catch{return null}let Z=R(Q);if(!Z)return`~/.codex/config.toml does not parse \u2014 ${u}`;if(Z.mcp_servers?.beacon)return null;if(/^\s*mcp_servers\s*=/m.test(Q))return`mcp_servers is an inline table \u2014 ${u}`;return null}function lQ(){let Q="",Z=!1;try{Q=s(C(),"utf8"),Z=!0}catch{}if(Z){let V=R(Q);if(!V)return{added:!1,error:`~/.codex/config.toml does not parse \u2014 ${u}`};if(V.mcp_servers?.beacon)return{added:!1};if(/^\s*mcp_servers\s*=/m.test(Q))return{added:!1,error:`mcp_servers is an inline table \u2014 ${u}`}}let $=!Q?"":Q.endsWith(`
 `)?`
 `:`
 
-`,Y=Q+$+cZ;if(R(Y)?.mcp_servers?.beacon?.command!=="beacon")return{added:!1,error:`could not safely append [mcp_servers.beacon] \u2014 ${F}`};return l(C(),Y),{added:!0}}function dQ(){let Q="";try{Q=s(C(),"utf8")}catch{return{removed:!1}}let Z=Q.split(`
+`,Y=Q+$+cZ;if(R(Y)?.mcp_servers?.beacon?.command!=="beacon")return{added:!1,error:`could not safely append [mcp_servers.beacon] \u2014 ${u}`};return l(C(),Y),{added:!0}}function dQ(){let Q="";try{Q=s(C(),"utf8")}catch{return{removed:!1}}let Z=Q.split(`
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package/dist/bin/remove.js

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 \x1B[1m${Z}\x1B[0m`;function O8(){if(!GZ)return x(QZ(hZ(process.cwd())));if(/^[0-9a-f]{12}$/.test(GZ)){let Z=x(GZ);if(Z)return Z}return x(QZ(hZ(w5(GZ))))}var i=O8();if(!i)console.error(`[beacon] ${GZ??process.cwd()} is not a registered Beacon workspace \u2014 nothing to remove.`),process.exit(1);console.log(u5(y5?"Beacon \xB7 remove workspace":"Beacon \xB7 remove workspace (dry run)"));console.log(`  name:  ${i.name}${r()===i.id?"  (currently active)":""}`);console.log(`  repo:  ${i.path}  ${f5("(untouched \u2014 only Beacon's data is erased)")}`);console.log(`  data:  ${n(i.id)}  ${f5("(deleted)")}`);if(!y5)console.log(u5("Nothing was changed.")),console.log(`  Run \x1B[1mbeacon remove${GZ?` ${GZ}`:""} --yes\x1B[0m to apply.
 `),process.exit(0);async function A8(Z){try{let{pid:$,port:Q}=JSON.parse(q8(w5(a(),"server.json"),"utf8"));if(!$||!Q)return!1;return process.kill($,0),(await fetch(`http://localhost:${Q}/api/workspace`,{method:"DELETE",headers:{"content-type":"application/json"},body:JSON.stringify({id:Z}),signal:AbortSignal.timeout(1e4)})).ok}catch{return!1}}if(await A8(i.id))console.log(`  ${T5(`removed ${i.name} (via the running daemon)`)}
 `);else{let Z=await k5(i.id);if(!Z.ok)console.error(`[beacon] remove failed: ${Z.error??"unknown error"}`),process.exit(1);console.log(`  ${T5(`removed ${i.name}`)}

package/dist/bin/uninstall.js

@@ -29,6 +29,7 @@ The user already has Beacon running. You're going to map this repository's archi
 A single \`beacon_init_persist\` MCP tool call with:
 
 - **hasFrontend**: \`true\` or \`false\` \u2014 does this repo have a frontend surface (UI code)? You just read the repo, so you know. Set it explicitly; it gates the frontend/backend \`layer\` distinction on the boards (a pure-backend repo never shows it).
+- **classificationRoots** (optional): the top-level directories whose immediate children are the meaningful groups on the Files canvas \u2014 e.g. \`["frontend", "backend/app"]\`. The canvas groups files ONE level below each root (so \`frontend\` \u2192 \`frontend/components\`, \`frontend/app\`, \u2026). Pick the dir sitting directly ABOVE the real package dirs \u2014 use \`frontend/src\` if there's a \`src/\` wrapper. List both sides of a monorepo so neither collapses into one flat blob. Not every dir \u2014 just where grouping should START. Omit it for a simple single-root repo; the canvas falls back to automatic grouping.
 - **components**: 8\u201325 main building blocks of this codebase. NOT every file. Group them by \`domain\` (short UPPERCASE: AUTH, API, DATA, UI, JOBS, INFRA, BILLING, SEARCH, \u2026). For each: a one-line technical \`role\`, a one-sentence plain-language \`plain\`, the few \`files\` that implement it (repo-relative), \`depends\` listing other component titles it relies on \u2014 and, when \`hasFrontend\` is true, \`layer\` (\`"frontend" | "backend" | "fullstack"\`). Use the dependency graph you can see in the source \u2014 files that import each other heavily usually belong together. If you spot a bug or something worth investigating while reading a component's code, add \`bugs: [{ note }]\` to that component \u2014 it renders as a bug flag on the node (attributed to the agent). Only flag what you actually saw in the code; don't speculate.
 - **roadmap**: 3\u20136 BROAD strategic directions. Big-picture themes only \u2014 "Harden auth & security", "Add observability", "Scale the data layer", "Pay down test-coverage debt". NOT detailed tasks. NOT file-level. Each gets a short title and one-line \`why\`. If one of them is a concrete BUG to fix (something broken you saw in the code), add \`kind: "BUG"\` so it renders as a typed bug card. When \`hasFrontend\` is true, give each a \`layer\` too (\`"frontend" | "backend" | "fullstack"\`).
 - **overview**: one paragraph describing what this project is and its stack. This lands in AGENTS.md as the project intro.
@@ -88,7 +89,7 @@ The one caveat: if the user manually edited an INIT-source node on the canvas (e
    - **~ changed**: COMPONENT_X (role expanded to cover Y)
    - **schema**: + 2 new tables (TableA, TableB); + 3 new endpoints; \u2212 1 deprecated endpoint
    No need to wait for confirmation \u2014 just show the diff so the user sees what's about to land.
-5. **Call \`beacon_init_persist\`** ONCE with the refreshed full analysis (same shape as init: \`components\`, \`roadmap\`, \`overview\`, \`conventions\`, \`snapshot\`, \`hasFrontend\` \u2014 re-assert it, the stack may have changed). It replaces all init-source nodes and regenerates \`AGENTS.md\`. Bug flags already on a component survive the refresh (they're carried over by title); add \`bugs: [{ note }]\` for anything NEW you found worth investigating \u2014 identical open flags are not duplicated.
+5. **Call \`beacon_init_persist\`** ONCE with the refreshed full analysis (same shape as init: \`components\`, \`roadmap\`, \`overview\`, \`conventions\`, \`snapshot\`, \`hasFrontend\` \u2014 re-assert it, the stack may have changed; and \`classificationRoots\` if the Files-canvas grouping needs to change, e.g. a new top-level dir like \`mobile/\` \u2014 OMIT it to keep the existing roots, don't pass \`[]\` unless you mean to clear them). It replaces all init-source nodes and regenerates \`AGENTS.md\`. Bug flags already on a component survive the refresh (they're carried over by title); add \`bugs: [{ note }]\` for anything NEW you found worth investigating \u2014 identical open flags are not duplicated.
 
 ## What you should NOT do
 

package/dist/lib/assets.js

@@ -28,6 +28,7 @@ The user already has Beacon running. You're going to map this repository's archi
 A single \`beacon_init_persist\` MCP tool call with:
 
 - **hasFrontend**: \`true\` or \`false\` \u2014 does this repo have a frontend surface (UI code)? You just read the repo, so you know. Set it explicitly; it gates the frontend/backend \`layer\` distinction on the boards (a pure-backend repo never shows it).
+- **classificationRoots** (optional): the top-level directories whose immediate children are the meaningful groups on the Files canvas \u2014 e.g. \`["frontend", "backend/app"]\`. The canvas groups files ONE level below each root (so \`frontend\` \u2192 \`frontend/components\`, \`frontend/app\`, \u2026). Pick the dir sitting directly ABOVE the real package dirs \u2014 use \`frontend/src\` if there's a \`src/\` wrapper. List both sides of a monorepo so neither collapses into one flat blob. Not every dir \u2014 just where grouping should START. Omit it for a simple single-root repo; the canvas falls back to automatic grouping.
 - **components**: 8\u201325 main building blocks of this codebase. NOT every file. Group them by \`domain\` (short UPPERCASE: AUTH, API, DATA, UI, JOBS, INFRA, BILLING, SEARCH, \u2026). For each: a one-line technical \`role\`, a one-sentence plain-language \`plain\`, the few \`files\` that implement it (repo-relative), \`depends\` listing other component titles it relies on \u2014 and, when \`hasFrontend\` is true, \`layer\` (\`"frontend" | "backend" | "fullstack"\`). Use the dependency graph you can see in the source \u2014 files that import each other heavily usually belong together. If you spot a bug or something worth investigating while reading a component's code, add \`bugs: [{ note }]\` to that component \u2014 it renders as a bug flag on the node (attributed to the agent). Only flag what you actually saw in the code; don't speculate.
 - **roadmap**: 3\u20136 BROAD strategic directions. Big-picture themes only \u2014 "Harden auth & security", "Add observability", "Scale the data layer", "Pay down test-coverage debt". NOT detailed tasks. NOT file-level. Each gets a short title and one-line \`why\`. If one of them is a concrete BUG to fix (something broken you saw in the code), add \`kind: "BUG"\` so it renders as a typed bug card. When \`hasFrontend\` is true, give each a \`layer\` too (\`"frontend" | "backend" | "fullstack"\`).
 - **overview**: one paragraph describing what this project is and its stack. This lands in AGENTS.md as the project intro.
@@ -87,7 +88,7 @@ The one caveat: if the user manually edited an INIT-source node on the canvas (e
    - **~ changed**: COMPONENT_X (role expanded to cover Y)
    - **schema**: + 2 new tables (TableA, TableB); + 3 new endpoints; \u2212 1 deprecated endpoint
    No need to wait for confirmation \u2014 just show the diff so the user sees what's about to land.
-5. **Call \`beacon_init_persist\`** ONCE with the refreshed full analysis (same shape as init: \`components\`, \`roadmap\`, \`overview\`, \`conventions\`, \`snapshot\`, \`hasFrontend\` \u2014 re-assert it, the stack may have changed). It replaces all init-source nodes and regenerates \`AGENTS.md\`. Bug flags already on a component survive the refresh (they're carried over by title); add \`bugs: [{ note }]\` for anything NEW you found worth investigating \u2014 identical open flags are not duplicated.
+5. **Call \`beacon_init_persist\`** ONCE with the refreshed full analysis (same shape as init: \`components\`, \`roadmap\`, \`overview\`, \`conventions\`, \`snapshot\`, \`hasFrontend\` \u2014 re-assert it, the stack may have changed; and \`classificationRoots\` if the Files-canvas grouping needs to change, e.g. a new top-level dir like \`mobile/\` \u2014 OMIT it to keep the existing roots, don't pass \`[]\` unless you mean to clear them). It replaces all init-source nodes and regenerates \`AGENTS.md\`. Bug flags already on a component survive the refresh (they're carried over by title); add \`bugs: [{ note }]\` for anything NEW you found worth investigating \u2014 identical open flags are not duplicated.
 
 ## What you should NOT do