@autonomos/cli 0.0.2 → 0.1.0

package/dist/index.mjs

@@ -1,12 +1,13 @@
 #!/usr/bin/env node
-import{Command as e}from"commander";import t from"picocolors";import{AGENT_FILE as n,AUTONOMOS_DIR as r,MANIFEST_FILE as i,PROTOCOL_FILE as a,PROTOCOL_TEMPLATE as o,PROTOCOL_VERSION as s,TASKS_FILE as c,TASKS_TEMPLATE as l,TaskParser as u,WORKLOGS_DIR as d,createManifest as f,generateAgentTemplate as p,generateManifestContent as m,parseManifest as h}from"@autonomos/core";import{existsSync as g,mkdirSync as _,readFileSync as v,readdirSync as y,statSync as b,writeFileSync as x}from"node:fs";import{basename as S,join as C,relative as w}from"node:path";function T(e){let t=e;for(;t!==`/`;){if(g(C(t,r))||g(C(t,`.git`)))return t;t=C(t,`..`)}return null}function E(e,t,r=0){let i=[],a=C(e,n);g(a)&&i.push({path:a,relativePath:w(t,a)||n,depth:r});try{let n=y(e);for(let a of n){if(a.startsWith(`.`)||a===`node_modules`||a===`dist`||a===`build`)continue;let n=C(e,a);try{b(n).isDirectory()&&i.push(...E(n,t,r+1))}catch{}}}catch{}return i}function D(e,t){if(e.length===0)return`  (no AGENT.md files found)`;let n=[],r=S(t);n.push(`📁 ${r}/`);for(let t=0;t<e.length;t++){let r=e[t],i=t===e.length-1?`└── `:`├── `,a=`    `.repeat(r.depth);n.push(`${a}${i}📄 ${r.relativePath}`)}return n.join(`
-`)}function O(e={}){let t=e.cwd??process.cwd(),n;if(e.all){let e=T(t);if(!e)return{success:!1,message:`Could not find project root (.autonomos or .git directory).`};n=e}else n=t;let r=E(n,n);if(r.length===0)return{success:!0,message:`No AGENT.md files found.`,count:0};let i=D(r,n);return{success:!0,message:`Found ${r.length} AGENT.md file(s)`,tree:i,count:r.length}}function k(e={}){let t=e.cwd??process.cwd(),u=e.dryRun??!1,h=[],v=[];g(C(t,`.git`))||v.push("No Git repository detected. Consider running `git init` first.");let y=C(t,r);if(g(y))return{success:!1,message:`Project already initialized with Protocol v${s}. Use \`autonomos update\` to update.`,created:[],warnings:[],dryRun:u};if(u)return h.push(r),h.push(`${r}/${d}`),h.push(`${r}/${i}`),h.push(`${r}/${a}`),h.push(`${r}/${c}`),g(C(t,n))?v.push(`${n} already exists, would skip.`):h.push(n),{success:!0,message:`Would initialize project with Agent Protocol v${s}`,created:h,warnings:v,dryRun:!0};_(y,{recursive:!0}),h.push(r),_(C(y,d),{recursive:!0}),h.push(`${r}/${d}`);let b=f(`0.0.1`);x(C(y,i),m(b)),h.push(`${r}/${i}`),x(C(y,a),o),h.push(`${r}/${a}`),x(C(y,c),l),h.push(`${r}/${c}`);let S=C(t,n);return g(S)?v.push(`${n} already exists, skipping.`):(x(S,p(t.split(`/`).pop()??`Project`)),h.push(n)),{success:!0,message:`Project initialized with Agent Protocol v${s}`,created:h,warnings:v,dryRun:!1}}function A(e={}){let t=C(e.cwd??process.cwd(),r),n=C(t,i);if(!g(n))return{success:!1,message:"Project not initialized. Run `autonomos init` first.",initialized:!1};let a;try{a=h(v(n,`utf-8`))}catch{return{success:!1,message:`Could not read manifest.json`,initialized:!0}}let o,s=C(t,c);if(g(s))try{let e=v(s,`utf-8`),t=u.parse(e);o={total:t.length,todo:t.filter(e=>e.status===`TODO`).length,inProgress:t.filter(e=>e.status===`IN_PROGRESS`).length,done:t.filter(e=>e.status===`DONE`).length,blocked:t.filter(e=>e.status===`BLOCKED`).length}}catch{}return{success:!0,message:`Project status retrieved`,protocolVersion:a.protocolVersion,cliVersion:a.cliVersion,initialized:!0,taskSummary:o}}function j(e,t){let n=e.split(`.`).map(Number),r=t.split(`.`).map(Number);for(let e=0;e<3;e++){let t=n[e]??0,i=r[e]??0;if(t<i)return-1;if(t>i)return 1}return 0}function M(e={}){let t=C(e.cwd??process.cwd(),r),n=C(t,i);if(!g(n))return{success:!1,message:"Project not initialized. Run `autonomos init` first."};let c=h(v(n,`utf-8`)),l=c.protocolVersion,u=j(l,s);return u===0?{success:!0,message:`Already up to date (Protocol v${s})`,previousVersion:l,newVersion:s}:u>0?{success:!1,message:`This project uses Protocol v${l}, but your CLI only knows v${s}. Update your CLI with \`npm i -g @autonomos/cli\`.`,previousVersion:l,newVersion:s,cliOutdated:!0}:(x(C(t,a),o),x(n,m({...c,protocolVersion:s,cliVersion:`0.0.1`,lastUpdated:new Date().toISOString()})),{success:!0,message:`Protocol updated: v${l} → v${s}`,previousVersion:l,newVersion:s})}const N=`0.0.1`,P=new e;P.name(`autonomos`).description(t.cyan(`CLI for the Autonomos Agent Protocol
+import{Command as e}from"commander";import t from"picocolors";import{AGENT_FILE as n,AUTONOMOS_DIR as r,MANIFEST_FILE as i,PROTOCOL_FILE as a,PROTOCOL_TEMPLATE as o,PROTOCOL_VERSION as s,TASKS_FILE as c,TASKS_TEMPLATE as l,TaskParser as u,WORKLOGS_DIR as d,createManifest as f,findAncestorAgents as p,generateAgentTemplate as m,generateManifestContent as h,listHarnesses as g,parseManifest as _,resolveTargets as v}from"@autonomos/core";import{existsSync as y,mkdirSync as b,readFileSync as x,readdirSync as S,statSync as C,writeFileSync as w}from"node:fs";import{basename as T,join as E,relative as D,resolve as O}from"node:path";import{checkbox as k}from"@inquirer/prompts";import{fileURLToPath as A}from"node:url";function j(e){let t=e;for(;t!==`/`;){if(y(E(t,r))||y(E(t,`.git`)))return t;t=E(t,`..`)}return null}function M(e,t,r=0){let i=[],a=E(e,n);y(a)&&i.push({path:a,relativePath:D(t,a)||n,depth:r});try{let n=S(e);for(let a of n){if(a.startsWith(`.`)||a===`node_modules`||a===`dist`||a===`build`)continue;let n=E(e,a);try{C(n).isDirectory()&&i.push(...M(n,t,r+1))}catch{}}}catch{}return i}function N(e,t){if(e.length===0)return`  (no AGENT.md files found)`;let r=T(t),i={name:r,isAgent:!1,children:{}};for(let t of e){let e=t.relativePath.split(`/`),r=i;for(let t of e){let e=t===n,i=r.children[t];i||(i={name:t,isAgent:e,children:{}},r.children[t]=i),r=i}}let a=[];a.push(`📁 ${r}/`);function o(e,t=``,n=!0){let r=Object.values(e.children);r.sort((e,t)=>!e.isAgent&&t.isAgent?-1:e.isAgent&&!t.isAgent?1:e.name.localeCompare(t.name)),r.forEach((e,n)=>{let i=n===r.length-1,s=i?`└── `:`├── `,c=e.isAgent?`📄`:`📁`,l=e.isAgent?e.name:`${e.name}/`;a.push(`${t}${s}${c} ${l}`),e.isAgent||o(e,t+(i?`    `:`│   `),i)})}return o(i),a.join(`
+`)}function P(e){return e.length===0?`  (no AGENT.md files found in the ancestor chain)`:e.map((t,n)=>`  ${(n+1).toString().padStart(e.length.toString().length,` `)}. ${t.relativeDir===`.`?`./AGENT.md`:`${t.relativeDir}/AGENT.md`}`).join(`
+`)}function F(e={}){let t=e.cwd??process.cwd();if(e.target){let n=j(t)??t,r;try{r=p(O(t,e.target),n)}catch(e){return{success:!1,message:`Failed to look up ancestors: ${e instanceof Error?e.message:String(e)}`,mode:`ancestors`}}let i=P(r);return{success:!0,message:`Found ${r.length} ancestor AGENT.md file(s) for "${e.target}" (root → target):\n${i}`,count:r.length,ancestors:r,mode:`ancestors`}}let n;if(e.all){let e=j(t);if(!e)return{success:!1,message:`Could not find project root (.autonomos or .git directory).`,mode:`tree`};n=e}else n=t;let r=M(n,n);if(r.length===0)return{success:!0,message:`No AGENT.md files found.`,count:0,mode:`tree`};let i=N(r,n);return{success:!0,message:`Found ${r.length} AGENT.md file(s)`,tree:i,count:r.length,mode:`tree`}}var I=`0.1.0`;const L=I,R=[`protocol-session.md`,`protocol-task.md`,`protocol-crystallize.md`];function z(){let e=A(import.meta.url),t=[O(e,`..`,`..`,`..`,`..`,`core`,`src`,`workflows`),O(e,`..`,`..`,`..`,`core`,`dist`,`workflows`),O(e,`..`,`..`,`..`,`..`,`core`,`dist`,`workflows`)];for(let e of t)if(y(e))return e;throw Error(`Could not locate the workflows directory inside @autonomos/core`)}async function B(){return k({message:`Which AI harnesses do you want to install the protocol for? (space to toggle, enter to confirm)`,choices:g().map(({id:e,harness:t})=>({name:t.name,value:e,checked:t.preferred}))})}async function V(e={}){let t=e.cwd??process.cwd(),u=e.dryRun??!1,p=[],_=[],S=[];y(E(t,`.git`))||_.push("No Git repository detected. Consider running `git init` first.");let C=E(t,r);if(y(C))return{success:!1,message:`Project already initialized with Protocol v${s}. Use \`autonomos update\` to update.`,created:[],warnings:[],dryRun:u};let T;T=e.all?g().map(({id:e})=>e):e.harnesses&&e.harnesses.length>0?e.harnesses:e.noPrompt||e.dryRun?[]:await B();let D=v(T,t);if(u){p.push(r),p.push(`${r}/${d}`),p.push(`${r}/${i}`),p.push(`${r}/${a}`),p.push(`${r}/${c}`),y(E(t,n))?_.push(`${n} already exists, would skip.`):p.push(n);for(let e of D)for(let t of R){let n=H(t,e.fileExtension);S.push(`${e.path}/${n}`)}return{success:!0,message:`Would initialize project with Agent Protocol v${s}${T.length?` (harnesses: ${T.join(`, `)})`:``}`,created:p,warnings:_,dryRun:!0,harnessFiles:S}}b(C,{recursive:!0}),p.push(r),b(E(C,d),{recursive:!0}),p.push(`${r}/${d}`);let O=f(L);w(E(C,i),h(O)),p.push(`${r}/${i}`),w(E(C,a),o),p.push(`${r}/${a}`),w(E(C,c),l),p.push(`${r}/${c}`);let k=E(t,n);y(k)?_.push(`${n} already exists, skipping.`):(w(k,m(t.split(`/`).pop()??`Project`)),p.push(n));let A=z();for(let e of D){b(e.path,{recursive:!0});for(let t of R){let n=x(E(A,t),`utf-8`),r=H(t,e.fileExtension);w(E(e.path,r),n),S.push(`${e.path}/${r}`)}}return{success:!0,message:`Project initialized with Agent Protocol v${s}${T.length>0?` for harnesses: ${T.join(`, `)}`:` (no harness workflows installed)`}`,created:p,warnings:_,dryRun:!1,harnessFiles:S}}function H(e,t){return e.replace(/^protocol-/,``).replace(/\.[^.]+$/,``)+t}function U(e={}){let t=E(e.cwd??process.cwd(),r),n=E(t,i);if(!y(n))return{success:!1,message:"Project not initialized. Run `autonomos init` first.",initialized:!1};let a;try{a=_(x(n,`utf-8`))}catch{return{success:!1,message:`Could not read manifest.json`,initialized:!0}}let o,s=E(t,c);if(y(s))try{let e=x(s,`utf-8`),t=u.parse(e);o={total:t.length,todo:t.filter(e=>e.status===`TODO`).length,inProgress:t.filter(e=>e.status===`IN_PROGRESS`).length,done:t.filter(e=>e.status===`DONE`).length,blocked:t.filter(e=>e.status===`BLOCKED`).length}}catch{}return{success:!0,message:`Project status retrieved`,protocolVersion:a.protocolVersion,cliVersion:a.cliVersion,initialized:!0,taskSummary:o}}function W(e,t){let n=e.split(`.`).map(Number),r=t.split(`.`).map(Number);for(let e=0;e<3;e++){let t=n[e]??0,i=r[e]??0;if(t<i)return-1;if(t>i)return 1}return 0}function G(e={}){let t=E(e.cwd??process.cwd(),r),n=E(t,i);if(!y(n))return{success:!1,message:"Project not initialized. Run `autonomos init` first."};let c=_(x(n,`utf-8`)),l=c.protocolVersion,u=W(l,s);return u===0?{success:!0,message:`Already up to date (Protocol v${s})`,previousVersion:l,newVersion:s}:u>0?{success:!1,message:`This project uses Protocol v${l}, but your CLI only knows v${s}. Update your CLI with \`npm i -g @autonomos/cli\`.`,previousVersion:l,newVersion:s,cliOutdated:!0}:(w(E(t,a),o),w(n,h({...c,protocolVersion:s,cliVersion:`0.0.1`,lastUpdated:new Date().toISOString()})),{success:!0,message:`Protocol updated: v${l} → v${s}`,previousVersion:l,newVersion:s})}const K=I,q=new e;q.name(`autonomos`).description(t.cyan(`CLI for the Autonomos Agent Protocol
 
 The Agent Protocol is a specification for AI agents to interact with codebases
 in a structured, consistent way. It defines how agents should read context,
 execute tasks, and persist knowledge.`)+`
 
-Documentation: ${t.underline(`https://github.com/saoudi-h/autonomos`)}`).version(`${t.bold(`CLI:`)} ${t.green(N)}\n${t.bold(`Protocol:`)} ${t.green(s)}`,`-v, --version`,`Show version information`).helpOption(`-h, --help`,`Show help information`).addHelpText(`after`,`
+Documentation: ${t.underline(`https://github.com/saoudi-h/autonomos`)}`).version(`${t.bold(`CLI:`)} ${t.green(K)}\n${t.bold(`Protocol:`)} ${t.green(s)}`,`-v, --version`,`Show version information`).helpOption(`-h, --help`,`Show help information`).addHelpText(`after`,`
 ${t.bold(`Examples:`)}
   $ ${t.cyan(`autonomos init`)}          Initialize the Agent Protocol in current directory
   $ ${t.cyan(`autonomos update`)}        Update Protocol to the latest version
@@ -15,7 +16,7 @@ ${t.bold(`Examples:`)}
 
 ${t.bold(`More info:`)}
   Run '${t.cyan(`autonomos <command> --help`)}' for detailed information about a command.
-`),P.command(`init`).description(`Initialize the Agent Protocol in the current directory`).addHelpText(`after`,`
+`),q.command(`init`).description(`Initialize the Agent Protocol in the current directory`).addHelpText(`after`,`
 This command creates the following structure:
   ${t.blue(`.autonomos/`)}
   ├── ${t.white(`manifest.json`)}    # Protocol metadata and version
@@ -24,11 +25,27 @@ This command creates the following structure:
   └── ${t.blue(`worklogs/`)}        # Session logs directory
   ${t.white(`AGENT.md`)}             # Project context file (at root)
 
+Additionally, when one or more harnesses are selected, the protocol workflow
+files (session / task / crystallize) are installed at the harness-specific
+target directory, e.g. .clinerules/workflows/ for Cline, .claude/skills/ for
+Claude Code, .agents/skills/ for the cross-tool standard (Cursor, Codex, etc.).
+
+${t.bold(`Harness selection:`)}
+  (default)     Interactive multi-select prompt at the start of init.
+  --harness     Skip the prompt and install only for the given harness id(s).
+                May be repeated, e.g. --harness cline --harness claude-code.
+  --all         Skip the prompt and install for all known harnesses.
+  --no-prompt   Same as not specifying a TTY; useful in CI/scripted contexts.
+
 ${t.bold(`Examples:`)}
   $ ${t.cyan(`autonomos init`)}
+  $ ${t.cyan(`autonomos init --harness cline`)}
+  $ ${t.cyan(`autonomos init --harness cline --harness claude-code`)}
+  $ ${t.cyan(`autonomos init --all`)}
+  $ ${t.cyan(`autonomos init --dry-run`)}
   $ ${t.cyan(`cd my-project && autonomos init`)}
-`).option(`-n, --dry-run`,`Preview what would be created without writing files`).action(e=>{let n=k({dryRun:e.dryRun});n.success||(console.error(t.red(`\n❌ ${n.message}`)),process.exit(1)),n.dryRun?console.log(t.cyan(`\n🔍 ${n.message} (dry-run)`)):console.log(t.green(`\n✅ ${n.message}`)),n.created.length>0&&(console.log(`\n${t.bold(n.dryRun?`Would create:`:`Created:`)}`),n.created.forEach(e=>console.log(`  ${t.blue(`📄`)} ${t.white(e)}`))),n.warnings.length>0&&(console.log(t.yellow(`
-Warnings:`)),n.warnings.forEach(e=>console.log(`  ${t.yellow(`⚠️`)}  ${e}`)))}),P.command(`update`).description(`Update the Protocol to the latest version`).addHelpText(`after`,`
+`).option(`-n, --dry-run`,`Preview what would be created without writing files`).option(`--harness <name...>`,`Install workflows for the specified harness id(s); skip the prompt`).option(`--all`,`Install workflows for all known harnesses; skip the prompt`).option(`--no-prompt`,`Skip the interactive harness prompt (use with --harness or --all)`).action(async e=>{try{let n=await V({dryRun:e.dryRun,harnesses:e.harness,all:e.all,noPrompt:e.prompt===!1});n.success||(console.error(t.red(`\n❌ ${n.message}`)),process.exit(1)),n.dryRun?console.log(t.cyan(`\n🔍 ${n.message} (dry-run)`)):console.log(t.green(`\n✅ ${n.message}`)),n.created.length>0&&(console.log(`\n${t.bold(n.dryRun?`Would create:`:`Created:`)}`),n.created.forEach(e=>console.log(`  ${t.blue(`📄`)} ${t.white(e)}`))),n.harnessFiles&&n.harnessFiles.length>0&&(console.log(`\n${t.bold(`Harness workflow files:`)}`),n.harnessFiles.forEach(e=>console.log(`  ${t.cyan(`⚙️ `)} ${t.white(e)}`))),n.warnings.length>0&&(console.log(t.yellow(`
+Warnings:`)),n.warnings.forEach(e=>console.log(`  ${t.yellow(`⚠️`)}  ${e}`)))}catch(e){let n=e instanceof Error?e.message:String(e);console.error(t.red(`\n❌ ${n}`)),process.exit(1)}}),q.command(`update`).description(`Update the Protocol to the latest version`).addHelpText(`after`,`
 This command updates ${t.white(`PROTOCOL.md`)} to the latest version embedded in the CLI.
 Only ${t.white(`PROTOCOL.md`)} is modified; your ${t.white(`TASKS.md`)} and ${t.white(`AGENT.md`)} files are preserved.
 
@@ -39,7 +56,7 @@ ${t.bold(`Version comparison:`)}
 
 ${t.bold(`Examples:`)}
   $ ${t.cyan(`autonomos update`)}
-`).action(()=>{let e=M();e.success||(e.cliOutdated?console.error(t.yellow(`\n⚠️  ${e.message}`)):console.error(t.red(`\n❌ ${e.message}`)),process.exit(1)),console.log(t.green(`\n✅ ${e.message}`))}),P.command(`status`).description(`Show project status and task summary`).addHelpText(`after`,`
+`).action(()=>{let e=G();e.success||(e.cliOutdated?console.error(t.yellow(`\n⚠️  ${e.message}`)):console.error(t.red(`\n❌ ${e.message}`)),process.exit(1)),console.log(t.green(`\n✅ ${e.message}`))}),q.command(`status`).description(`Show project status and task summary`).addHelpText(`after`,`
 Displays information about the current project:
   - Protocol version
   - CLI version used for initialization
@@ -47,17 +64,27 @@ Displays information about the current project:
 
 ${t.bold(`Examples:`)}
   $ ${t.cyan(`autonomos status`)}
-`).action(()=>{let e=A();if(e.success||(console.error(t.red(`\n❌ ${e.message}`)),process.exit(1)),console.log(`\n${t.bold(`📦 Protocol`)} ${t.green(`v${e.protocolVersion}`)} ${t.dim(`(CLI v${e.cliVersion})`)}`),e.taskSummary){let n=e.taskSummary;console.log(`\n${t.bold(`📋 Tasks:`)} ${t.cyan(n.total)} total`),console.log(`   ${t.white(`⬜ Todo:`)} ${t.white(n.todo)}`),console.log(`   ${t.blue(`🔄 In Progress:`)} ${t.blue(n.inProgress)}`),console.log(`   ${t.green(`✅ Done:`)} ${t.green(n.done)}`),n.blocked>0&&console.log(`   ${t.red(`🚫 Blocked:`)} ${t.red(n.blocked)}`)}}),P.command(`agents`).description(`List all AGENT.md files in the project`).option(`-a, --all`,`Search from project root instead of current directory`).addHelpText(`after`,`
-This command discovers and displays all ${t.white(`AGENT.md`)} files in a tree structure.
-${t.white(`AGENT.md`)} files provide context to AI agents about specific directories.
+`).action(()=>{let e=U();if(e.success||(console.error(t.red(`\n❌ ${e.message}`)),process.exit(1)),console.log(`\n${t.bold(`📦 Protocol`)} ${t.green(`v${e.protocolVersion}`)} ${t.dim(`(CLI v${e.cliVersion})`)}`),e.taskSummary){let n=e.taskSummary;console.log(`\n${t.bold(`📋 Tasks:`)} ${t.cyan(n.total)} total`),console.log(`   ${t.white(`⬜ Todo:`)} ${t.white(n.todo)}`),console.log(`   ${t.blue(`🔄 In Progress:`)} ${t.blue(n.inProgress)}`),console.log(`   ${t.green(`✅ Done:`)} ${t.green(n.done)}`),n.blocked>0&&console.log(`   ${t.red(`🚫 Blocked:`)} ${t.red(n.blocked)}`)}}),q.command(`agents`).description(`List all AGENT.md files in the project, or the ancestor chain for a path`).argument(`[path]`,`Optional file or folder. When provided, return the ordered list of ancestor AGENT.md files (root -> target) instead of the full tree.`).option(`-a, --all`,`In tree mode: search from project root instead of current directory`).addHelpText(`after`,`
+This command has two modes:
+
+${t.bold(`Tree mode`)} (default, or with ${t.cyan(`--all`)}):
+  Discover and display all ${t.white(`AGENT.md`)} files in a tree structure.
+  Used at session start to get the broader fractal picture of the project.
 
-${t.bold(`Modes:`)}
-  (default)   Search from current directory downwards
-  --all       Search from project root (finds .autonomos or .git)
+${t.bold(`Ancestors mode`)} (with a positional ${t.cyan(`<path>`)} argument):
+  Return the ordered list of ${t.white(`AGENT.md`)} files on the path from the
+  target up to the project root. Root-first; non-existent ancestors are
+  silently skipped. Used at task start to get the precise fractal context
+  for the file or folder being worked on.
 
 ${t.bold(`Examples:`)}
-  $ ${t.cyan(`autonomos agents`)}           # List from current directory
-  $ ${t.cyan(`autonomos agents --all`)}     # List from project root
-  $ ${t.cyan(`cd packages/core && autonomos agents`)}  # List only in packages/core
-`).action(e=>{let n=O({all:e.all});n.success||(console.error(t.red(`\n❌ ${n.message}`)),process.exit(1)),console.log(`
-`+(n.tree??n.message)),console.log(t.dim(`\n${n.message}`))}),P.command(`version`).description(`Show the current Protocol version`).action(()=>{console.log(`${t.bold(`Agent Protocol`)} ${t.green(`v${s}`)} ${t.dim(`(CLI v${N})`)}`)}),P.parse();export{};
+  $ ${t.cyan(`autonomos agents`)}                                    # Tree, from current dir
+  $ ${t.cyan(`autonomos agents --all`)}                              # Tree, from project root
+  $ ${t.cyan(`autonomos agents apps/web`)}                           # Ancestors for apps/web
+  $ ${t.cyan(`autonomos agents apps/web/components/ui/button.tsx`)}  # Ancestors for a file
+`).action((e,n)=>{let r=F({all:n.all,target:e});r.success||(console.error(t.red(`
+❌ ${r.message}`)),process.exit(1)),r.mode===`ancestors`?console.log(t.cyan(`
+🔍 ${r.message}`)):(console.log(`
+`+(r.tree??r.message)),console.log(t.dim(`
+${r.message}`)))}),q.command(`version`).description(`Show the current Protocol version`).action(()=>{console.log(`${t.bold(`Agent Protocol`)} ${t.green(`v${s}`)} ${t.dim(`(CLI v${K})`)}`)}),q.parse();export{};
+//# sourceMappingURL=index.mjs.map

package/dist/index.mjs.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.mjs","names":["CLI_VERSION","packageJson.version","CLI_VERSION","packageJson.version"],"sources":["../src/commands/agents.ts","../package.json","../src/commands/init.ts","../src/commands/status.ts","../src/commands/update.ts","../src/index.ts"],"sourcesContent":["import { existsSync, readdirSync, statSync } from 'node:fs'\nimport { basename, join, relative, resolve } from 'node:path'\n\nimport { AGENT_FILE, AUTONOMOS_DIR, findAncestorAgents, type AncestorAgent } from '@autonomos/core'\n\ninterface AgentsOptions {\n    cwd?: string\n    /**\n     * When true, search from the project root (discovered by walking up to\n     * .autonomos or .git) instead of the current directory.\n     */\n    all?: boolean\n    /**\n     * Optional target path (file or directory). When provided, the command\n     * switches to \"ancestor lookup\" mode and prints the ordered list of\n     * AGENT.md files on the path from the target up to the project root.\n     * Existing ancestors only; gaps are silently skipped.\n     */\n    target?: string\n}\n\ninterface AgentEntry {\n    path: string\n    relativePath: string\n    depth: number\n}\n\n/**\n * Find the project root by looking for .autonomos or .git directory\n */\nfunction findProjectRoot(startDir: string): string | null {\n    let currentDir = startDir\n\n    while (currentDir !== '/') {\n        if (existsSync(join(currentDir, AUTONOMOS_DIR)) || existsSync(join(currentDir, '.git'))) {\n            return currentDir\n        }\n        currentDir = join(currentDir, '..')\n    }\n\n    return null\n}\n\n/**\n * Recursively find all AGENT.md files in a directory\n */\nfunction findAgentFiles(dir: string, baseDir: string, depth = 0): AgentEntry[] {\n    const entries: AgentEntry[] = []\n\n    // Check if AGENT.md exists in current directory\n    const agentPath = join(dir, AGENT_FILE)\n    if (existsSync(agentPath)) {\n        entries.push({\n            path: agentPath,\n            relativePath: relative(baseDir, agentPath) || AGENT_FILE,\n            depth,\n        })\n    }\n\n    // Scan subdirectories\n    try {\n        const items = readdirSync(dir)\n        for (const item of items) {\n            // Skip hidden directories and node_modules\n            if (\n                item.startsWith('.') ||\n                item === 'node_modules' ||\n                item === 'dist' ||\n                item === 'build'\n            ) {\n                continue\n            }\n\n            const itemPath = join(dir, item)\n            try {\n                if (statSync(itemPath).isDirectory()) {\n                    entries.push(...findAgentFiles(itemPath, baseDir, depth + 1))\n                }\n            } catch {\n                // Skip inaccessible directories\n            }\n        }\n    } catch {\n        // Skip inaccessible directories\n    }\n\n    return entries\n}\n\ninterface TreeNode {\n    name: string\n    isAgent: boolean\n    children: Record<string, TreeNode>\n}\n\n/**\n * Format agent entries as a true tree structure\n */\nfunction formatAsTree(entries: AgentEntry[], baseDir: string): string {\n    if (entries.length === 0) {\n        return '  (no AGENT.md files found)'\n    }\n\n    const rootName = basename(baseDir)\n    const tree: TreeNode = { name: rootName, isAgent: false, children: {} }\n\n    // Build the tree\n    for (const entry of entries) {\n        const parts = entry.relativePath.split('/')\n        let current = tree\n\n        for (const part of parts) {\n            const isAgent = part === AGENT_FILE\n\n            let child = current.children[part]\n            if (!child) {\n                child = {\n                    name: part,\n                    isAgent,\n                    children: {},\n                }\n                current.children[part] = child\n            }\n            current = child\n        }\n    }\n\n    const lines: string[] = []\n    lines.push(`📁 ${rootName}/`)\n\n    function render(node: TreeNode, prefix = '', _isLast = true): void {\n        const children = Object.values(node.children)\n        children.sort((a, b) => {\n            // Folders first\n            if (!a.isAgent && b.isAgent) return -1\n            if (a.isAgent && !b.isAgent) return 1\n            return a.name.localeCompare(b.name)\n        })\n\n        children.forEach((child, index) => {\n            const childIsLast = index === children.length - 1\n            const branch = childIsLast ? '└── ' : '├── '\n            const icon = child.isAgent ? '📄' : '📁'\n            const name = child.isAgent ? child.name : `${child.name}/`\n\n            lines.push(`${prefix}${branch}${icon} ${name}`)\n\n            if (!child.isAgent) {\n                const nextPrefix = prefix + (childIsLast ? '    ' : '│   ')\n                render(child, nextPrefix, childIsLast)\n            }\n        })\n    }\n\n    render(tree)\n    return lines.join('\\n')\n}\n\n/**\n * Format the ancestor-lookup result as a numbered, root-first list.\n */\nfunction formatAncestors(ancestors: AncestorAgent[]): string {\n    if (ancestors.length === 0) {\n        return '  (no AGENT.md files found in the ancestor chain)'\n    }\n    const lines = ancestors.map((a, i) => {\n        const idx = (i + 1).toString().padStart(ancestors.length.toString().length, ' ')\n        return `  ${idx}. ${a.relativeDir === '.' ? './AGENT.md' : `${a.relativeDir}/AGENT.md`}`\n    })\n    return lines.join('\\n')\n}\n\ninterface AgentsResult {\n    success: boolean\n    message: string\n    tree?: string\n    count?: number\n    /**\n     * When in ancestor-lookup mode, the list of ancestor AGENT.md files\n     * (root-first order). Each entry has `dir`, `path`, `relativeDir`.\n     */\n    ancestors?: AncestorAgent[]\n    /** The mode that was used. Useful for the caller to format output. */\n    mode: 'tree' | 'ancestors'\n}\n\n/**\n * List AGENT.md files in the project.\n *\n * Two modes:\n *\n * 1. **Tree mode** (default, or with `--all`): list all AGENT.md files\n *    in a tree structure. Used at session start to get the full fractal\n *    picture of the project.\n *\n * 2. **Ancestors mode** (with a positional `<path>` argument): return\n *    the ordered list of AGENT.md files on the path from the target\n *    up to the project root. Root-first, with non-existent ancestors\n *    silently skipped. Used at task start to get the precise fractal\n *    context for the file or folder being worked on.\n */\nexport function agents(options: AgentsOptions = {}): AgentsResult {\n    const cwd = options.cwd ?? process.cwd()\n\n    // --- Ancestors mode (positional <path> arg) ---\n    if (options.target) {\n        const projectRoot = findProjectRoot(cwd) ?? cwd\n        let ancestors: AncestorAgent[]\n        try {\n            ancestors = findAncestorAgents(resolve(cwd, options.target), projectRoot)\n        } catch (err) {\n            const message = err instanceof Error ? err.message : String(err)\n            return {\n                success: false,\n                message: `Failed to look up ancestors: ${message}`,\n                mode: 'ancestors',\n            }\n        }\n        const list = formatAncestors(ancestors)\n        return {\n            success: true,\n            message: `Found ${ancestors.length} ancestor AGENT.md file(s) for \"${options.target}\" (root → target):\\n${list}`,\n            count: ancestors.length,\n            ancestors,\n            mode: 'ancestors',\n        }\n    }\n\n    // --- Tree mode (default) ---\n    let searchBase: string\n    if (options.all) {\n        const projectRoot = findProjectRoot(cwd)\n        if (!projectRoot) {\n            return {\n                success: false,\n                message: 'Could not find project root (.autonomos or .git directory).',\n                mode: 'tree',\n            }\n        }\n        searchBase = projectRoot\n    } else {\n        searchBase = cwd\n    }\n\n    const entries = findAgentFiles(searchBase, searchBase)\n\n    if (entries.length === 0) {\n        return {\n            success: true,\n            message: 'No AGENT.md files found.',\n            count: 0,\n            mode: 'tree',\n        }\n    }\n\n    const tree = formatAsTree(entries, searchBase)\n    return {\n        success: true,\n        message: `Found ${entries.length} AGENT.md file(s)`,\n        tree,\n        count: entries.length,\n        mode: 'tree',\n    }\n}\n","","import { checkbox } from '@inquirer/prompts'\nimport { existsSync, mkdirSync, readFileSync, writeFileSync } from 'node:fs'\nimport { join, resolve } from 'node:path'\nimport { fileURLToPath } from 'node:url'\n\nimport {\n    AGENT_FILE,\n    AUTONOMOS_DIR,\n    createManifest,\n    generateAgentTemplate,\n    generateManifestContent,\n    listHarnesses,\n    MANIFEST_FILE,\n    PROTOCOL_FILE,\n    PROTOCOL_TEMPLATE,\n    PROTOCOL_VERSION,\n    resolveTargets,\n    TASKS_FILE,\n    TASKS_TEMPLATE,\n    WORKLOGS_DIR,\n} from '@autonomos/core'\n\n// Synchronize with the package.json version at build time. The bundler\n// inlines this JSON, so the resolved value is always current.\n// (package.json import — inlined by the bundler)\nimport packageJson from '../../package.json' with { type: 'json' }\nconst CLI_VERSION: string = packageJson.version\n\ninterface InitOptions {\n    cwd?: string\n    dryRun?: boolean\n    /** Specific harness ids to install for. */\n    harnesses?: string[]\n    /** Install for all known harnesses (overrides `harnesses`). */\n    all?: boolean\n    /** Skip the interactive prompt even when no harnesses are specified. */\n    noPrompt?: boolean\n}\n\ninterface InitResult {\n    success: boolean\n    message: string\n    created: string[]\n    warnings: string[]\n    dryRun?: boolean\n    harnessFiles?: string[]\n}\n\nconst WORKFLOW_FILES = [\n    'protocol-session.md',\n    'protocol-task.md',\n    'protocol-crystallize.md',\n] as const\n\n/**\n * Resolve the workflows directory inside the @autonomos/core package.\n * In dev (tsdown not yet run), this points to src/workflows. In published\n * builds, it falls back to dist/workflows.\n */\nfunction getWorkflowsDir(): string {\n    const here = fileURLToPath(import.meta.url)\n    // here is .../packages/cli/dist/commands/init.mjs (or src/commands/init.ts in dev)\n    // Walk up until we find @autonomos/core\n    const candidates = [\n        // Dev (running from src via tsdown --watch): packages/cli/src/commands/init.ts\n        resolve(here, '..', '..', '..', '..', 'core', 'src', 'workflows'),\n        // Built (single bundle at packages/cli/dist/index.mjs): packages/core/dist/workflows\n        resolve(here, '..', '..', '..', 'core', 'dist', 'workflows'),\n        // Built (per-entry at packages/cli/dist/commands/init.mjs): packages/core/dist/workflows\n        resolve(here, '..', '..', '..', '..', 'core', 'dist', 'workflows'),\n    ]\n    for (const candidate of candidates) {\n        if (existsSync(candidate)) return candidate\n    }\n    throw new Error('Could not locate the workflows directory inside @autonomos/core')\n}\n\n/**\n * Prompt the user interactively for which harnesses to install for.\n * Returns the selected harness ids. An empty array means the user chose\n * to skip harness installation entirely.\n */\nasync function promptForHarnesses(): Promise<string[]> {\n    const harnesses = listHarnesses()\n    return checkbox({\n        message:\n            'Which AI harnesses do you want to install the protocol for? (space to toggle, enter to confirm)',\n        choices: harnesses.map(({ id, harness }) => ({\n            name: harness.name,\n            value: id,\n            checked: harness.preferred,\n        })),\n    })\n}\n\n/**\n * Initialize the Autonomos Agent Protocol in a directory.\n */\nexport async function init(options: InitOptions = {}): Promise<InitResult> {\n    const cwd = options.cwd ?? process.cwd()\n    const dryRun = options.dryRun ?? false\n    const created: string[] = []\n    const warnings: string[] = []\n    const harnessFiles: string[] = []\n\n    // Check for .git\n    const gitDir = join(cwd, '.git')\n    if (!existsSync(gitDir)) {\n        warnings.push('No Git repository detected. Consider running `git init` first.')\n    }\n\n    // Check if already initialized\n    const autonomosDir = join(cwd, AUTONOMOS_DIR)\n    if (existsSync(autonomosDir)) {\n        return {\n            success: false,\n            message: `Project already initialized with Protocol v${PROTOCOL_VERSION}. Use \\`autonomos update\\` to update.`,\n            created: [],\n            warnings: [],\n            dryRun,\n        }\n    }\n\n    // Resolve which harnesses to install for\n    let selectedHarnesses: string[]\n    if (options.all) {\n        selectedHarnesses = listHarnesses().map(({ id }) => id)\n    } else if (options.harnesses && options.harnesses.length > 0) {\n        selectedHarnesses = options.harnesses\n    } else if (options.noPrompt || options.dryRun) {\n        selectedHarnesses = []\n    } else {\n        selectedHarnesses = await promptForHarnesses()\n    }\n\n    // Compute the unique target directories\n    const targets = resolveTargets(selectedHarnesses, cwd)\n\n    // In dry-run mode, just collect what would be created\n    if (dryRun) {\n        created.push(AUTONOMOS_DIR)\n        created.push(`${AUTONOMOS_DIR}/${WORKLOGS_DIR}`)\n        created.push(`${AUTONOMOS_DIR}/${MANIFEST_FILE}`)\n        created.push(`${AUTONOMOS_DIR}/${PROTOCOL_FILE}`)\n        created.push(`${AUTONOMOS_DIR}/${TASKS_FILE}`)\n\n        const agentPath = join(cwd, AGENT_FILE)\n        if (!existsSync(agentPath)) {\n            created.push(AGENT_FILE)\n        } else {\n            warnings.push(`${AGENT_FILE} already exists, would skip.`)\n        }\n\n        for (const target of targets) {\n            for (const workflowFile of WORKFLOW_FILES) {\n                const filename = buildTargetFilename(workflowFile, target.fileExtension)\n                harnessFiles.push(`${target.path}/${filename}`)\n            }\n        }\n\n        return {\n            success: true,\n            message: `Would initialize project with Agent Protocol v${PROTOCOL_VERSION}${selectedHarnesses.length ? ` (harnesses: ${selectedHarnesses.join(', ')})` : ''}`,\n            created,\n            warnings,\n            dryRun: true,\n            harnessFiles,\n        }\n    }\n\n    // Create .autonomos directory\n    mkdirSync(autonomosDir, { recursive: true })\n    created.push(AUTONOMOS_DIR)\n\n    // Create worklogs directory\n    const worklogsDir = join(autonomosDir, WORKLOGS_DIR)\n    mkdirSync(worklogsDir, { recursive: true })\n    created.push(`${AUTONOMOS_DIR}/${WORKLOGS_DIR}`)\n\n    // Create manifest.json\n    const manifest = createManifest(CLI_VERSION)\n    const manifestPath = join(autonomosDir, MANIFEST_FILE)\n    writeFileSync(manifestPath, generateManifestContent(manifest))\n    created.push(`${AUTONOMOS_DIR}/${MANIFEST_FILE}`)\n\n    // Create PROTOCOL.md\n    const protocolPath = join(autonomosDir, PROTOCOL_FILE)\n    writeFileSync(protocolPath, PROTOCOL_TEMPLATE)\n    created.push(`${AUTONOMOS_DIR}/${PROTOCOL_FILE}`)\n\n    // Create TASKS.md\n    const tasksPath = join(autonomosDir, TASKS_FILE)\n    writeFileSync(tasksPath, TASKS_TEMPLATE)\n    created.push(`${AUTONOMOS_DIR}/${TASKS_FILE}`)\n\n    // Create AGENT.md at root (only if it doesn't exist)\n    const agentPath = join(cwd, AGENT_FILE)\n    if (!existsSync(agentPath)) {\n        const projectName = cwd.split('/').pop() ?? 'Project'\n        writeFileSync(agentPath, generateAgentTemplate(projectName))\n        created.push(AGENT_FILE)\n    } else {\n        warnings.push(`${AGENT_FILE} already exists, skipping.`)\n    }\n\n    // Install workflow files for each selected harness\n    const workflowsDir = getWorkflowsDir()\n    for (const target of targets) {\n        mkdirSync(target.path, { recursive: true })\n        for (const workflowFile of WORKFLOW_FILES) {\n            const source = readFileSync(join(workflowsDir, workflowFile), 'utf-8')\n            const filename = buildTargetFilename(workflowFile, target.fileExtension)\n            const dest = join(target.path, filename)\n            writeFileSync(dest, source)\n            harnessFiles.push(`${target.path}/${filename}`)\n        }\n    }\n\n    const harnessMsg =\n        selectedHarnesses.length > 0\n            ? ` for harnesses: ${selectedHarnesses.join(', ')}`\n            : ' (no harness workflows installed)'\n\n    return {\n        success: true,\n        message: `Project initialized with Agent Protocol v${PROTOCOL_VERSION}${harnessMsg}`,\n        created,\n        warnings,\n        dryRun: false,\n        harnessFiles,\n    }\n}\n\n/**\n * Strip the leading `protocol-` prefix from a workflow filename so that\n * the installed file is just `session.md`, `task.md`, `crystallize.md`.\n * This gives shorter invocation names (`/session` instead of `/protocol-session`).\n */\nfunction buildTargetFilename(sourceFile: string, targetExtension: string): string {\n    // sourceFile: \"protocol-session.md\" -> \"session.md\" (drop prefix, drop source ext, add target ext)\n    const withoutPrefix = sourceFile.replace(/^protocol-/, '')\n    const withoutExt = withoutPrefix.replace(/\\.[^.]+$/, '')\n    return withoutExt + targetExtension\n}\n","import { existsSync, readFileSync } from 'node:fs'\nimport { join } from 'node:path'\n\nimport {\n    AUTONOMOS_DIR,\n    MANIFEST_FILE,\n    parseManifest,\n    TaskParser,\n    TASKS_FILE,\n    type Manifest,\n} from '@autonomos/core'\n\ninterface StatusOptions {\n    cwd?: string\n}\n\ninterface TaskSummary {\n    total: number\n    todo: number\n    inProgress: number\n    done: number\n    blocked: number\n}\n\ninterface StatusResult {\n    success: boolean\n    message: string\n    protocolVersion?: string\n    cliVersion?: string\n    initialized: boolean\n    taskSummary?: TaskSummary\n}\n\n/**\n * Get project status and task summary\n */\nexport function status(options: StatusOptions = {}): StatusResult {\n    const cwd = options.cwd ?? process.cwd()\n\n    // Check if initialized\n    const autonomosDir = join(cwd, AUTONOMOS_DIR)\n    const manifestPath = join(autonomosDir, MANIFEST_FILE)\n\n    if (!existsSync(manifestPath)) {\n        return {\n            success: false,\n            message: 'Project not initialized. Run `autonomos init` first.',\n            initialized: false,\n        }\n    }\n\n    // Read manifest\n    let manifest: Manifest\n    try {\n        const manifestContent = readFileSync(manifestPath, 'utf-8')\n        manifest = parseManifest(manifestContent)\n    } catch {\n        return {\n            success: false,\n            message: 'Could not read manifest.json',\n            initialized: true,\n        }\n    }\n\n    // Parse tasks\n    let taskSummary: TaskSummary | undefined\n    const tasksPath = join(autonomosDir, TASKS_FILE)\n\n    if (existsSync(tasksPath)) {\n        try {\n            const tasksContent = readFileSync(tasksPath, 'utf-8')\n            const tasks = TaskParser.parse(tasksContent)\n\n            taskSummary = {\n                total: tasks.length,\n                todo: tasks.filter(t => t.status === 'TODO').length,\n                inProgress: tasks.filter(t => t.status === 'IN_PROGRESS').length,\n                done: tasks.filter(t => t.status === 'DONE').length,\n                blocked: tasks.filter(t => t.status === 'BLOCKED').length,\n            }\n        } catch {\n            // Tasks file exists but couldn't be parsed\n        }\n    }\n\n    return {\n        success: true,\n        message: 'Project status retrieved',\n        protocolVersion: manifest.protocolVersion,\n        cliVersion: manifest.cliVersion,\n        initialized: true,\n        taskSummary,\n    }\n}\n","import { existsSync, readFileSync, writeFileSync } from 'node:fs'\nimport { join } from 'node:path'\n\nimport {\n    AUTONOMOS_DIR,\n    generateManifestContent,\n    MANIFEST_FILE,\n    parseManifest,\n    PROTOCOL_FILE,\n    PROTOCOL_TEMPLATE,\n    PROTOCOL_VERSION,\n    type Manifest,\n} from '@autonomos/core'\n\n// Get CLI version from package.json\nconst CLI_VERSION = '0.0.1' // TODO: Import from package.json\n\ninterface UpdateOptions {\n    cwd?: string\n}\n\ninterface UpdateResult {\n    success: boolean\n    message: string\n    previousVersion?: string\n    newVersion?: string\n    cliOutdated?: boolean\n}\n\n/**\n * Compare two SemVer versions\n * Returns: -1 if a < b, 0 if a === b, 1 if a > b\n */\nfunction compareVersions(a: string, b: string): number {\n    const aParts = a.split('.').map(Number)\n    const bParts = b.split('.').map(Number)\n\n    for (let i = 0; i < 3; i++) {\n        const aNum = aParts[i] ?? 0\n        const bNum = bParts[i] ?? 0\n        if (aNum < bNum) return -1\n        if (aNum > bNum) return 1\n    }\n    return 0\n}\n\n/**\n * Update the Protocol to the latest version\n */\nexport function update(options: UpdateOptions = {}): UpdateResult {\n    const cwd = options.cwd ?? process.cwd()\n\n    // Check if initialized\n    const autonomosDir = join(cwd, AUTONOMOS_DIR)\n    const manifestPath = join(autonomosDir, MANIFEST_FILE)\n\n    if (!existsSync(manifestPath)) {\n        return {\n            success: false,\n            message: 'Project not initialized. Run `autonomos init` first.',\n        }\n    }\n\n    // Read current manifest\n    const manifestContent = readFileSync(manifestPath, 'utf-8')\n    const manifest: Manifest = parseManifest(manifestContent)\n    const currentVersion = manifest.protocolVersion\n\n    // Compare versions\n    const comparison = compareVersions(currentVersion, PROTOCOL_VERSION)\n\n    if (comparison === 0) {\n        return {\n            success: true,\n            message: `Already up to date (Protocol v${PROTOCOL_VERSION})`,\n            previousVersion: currentVersion,\n            newVersion: PROTOCOL_VERSION,\n        }\n    }\n\n    if (comparison > 0) {\n        // Project uses a newer version than CLI knows\n        return {\n            success: false,\n            message: `This project uses Protocol v${currentVersion}, but your CLI only knows v${PROTOCOL_VERSION}. Update your CLI with \\`npm i -g @autonomos/cli\\`.`,\n            previousVersion: currentVersion,\n            newVersion: PROTOCOL_VERSION,\n            cliOutdated: true,\n        }\n    }\n\n    // Update Protocol (comparison < 0)\n    const protocolPath = join(autonomosDir, PROTOCOL_FILE)\n    writeFileSync(protocolPath, PROTOCOL_TEMPLATE)\n\n    // Update manifest\n    const updatedManifest: Manifest = {\n        ...manifest,\n        protocolVersion: PROTOCOL_VERSION,\n        cliVersion: CLI_VERSION,\n        lastUpdated: new Date().toISOString(),\n    }\n    writeFileSync(manifestPath, generateManifestContent(updatedManifest))\n\n    return {\n        success: true,\n        message: `Protocol updated: v${currentVersion} → v${PROTOCOL_VERSION}`,\n        previousVersion: currentVersion,\n        newVersion: PROTOCOL_VERSION,\n    }\n}\n","#!/usr/bin/env node\nimport { Command } from 'commander'\nimport pc from 'picocolors'\n\nimport { PROTOCOL_VERSION } from '@autonomos/core'\nimport { agents } from './commands/agents'\nimport { init } from './commands/init'\nimport { status } from './commands/status'\nimport { update } from './commands/update'\n\n// Synchronize with the package.json version at build time. The bundler\n// inlines this JSON, so the resolved value is always current.\n// (package.json import — inlined by the bundler)\nimport packageJson from '../package.json' with { type: 'json' }\nconst CLI_VERSION: string = packageJson.version\n\nconst program = new Command()\n\nprogram\n    .name('autonomos')\n    .description(\n        pc.cyan(`CLI for the Autonomos Agent Protocol\n\nThe Agent Protocol is a specification for AI agents to interact with codebases\nin a structured, consistent way. It defines how agents should read context,\nexecute tasks, and persist knowledge.`) +\n            `\n\nDocumentation: ${pc.underline('https://github.com/saoudi-h/autonomos')}`\n    )\n    .version(\n        `${pc.bold('CLI:')} ${pc.green(CLI_VERSION)}\\n${pc.bold('Protocol:')} ${pc.green(PROTOCOL_VERSION)}`,\n        '-v, --version',\n        'Show version information'\n    )\n    .helpOption('-h, --help', 'Show help information')\n    .addHelpText(\n        'after',\n        `\n${pc.bold('Examples:')}\n  $ ${pc.cyan('autonomos init')}          Initialize the Agent Protocol in current directory\n  $ ${pc.cyan('autonomos update')}        Update Protocol to the latest version\n  $ ${pc.cyan('autonomos status')}        Show project status and task summary\n  $ ${pc.cyan('autonomos agents')}        List all AGENT.md files in the project\n\n${pc.bold('More info:')}\n  Run '${pc.cyan('autonomos <command> --help')}' for detailed information about a command.\n`\n    )\n\nprogram\n    .command('init')\n    .description('Initialize the Agent Protocol in the current directory')\n    .addHelpText(\n        'after',\n        `\nThis command creates the following structure:\n  ${pc.blue('.autonomos/')}\n  ├── ${pc.white('manifest.json')}    # Protocol metadata and version\n  ├── ${pc.white('PROTOCOL.md')}      # Immutable protocol specification\n  ├── ${pc.white('TASKS.md')}         # Task registry\n  └── ${pc.blue('worklogs/')}        # Session logs directory\n  ${pc.white('AGENT.md')}             # Project context file (at root)\n\nAdditionally, when one or more harnesses are selected, the protocol workflow\nfiles (session / task / crystallize) are installed at the harness-specific\ntarget directory, e.g. .clinerules/workflows/ for Cline, .claude/skills/ for\nClaude Code, .agents/skills/ for the cross-tool standard (Cursor, Codex, etc.).\n\n${pc.bold('Harness selection:')}\n  (default)     Interactive multi-select prompt at the start of init.\n  --harness     Skip the prompt and install only for the given harness id(s).\n                May be repeated, e.g. --harness cline --harness claude-code.\n  --all         Skip the prompt and install for all known harnesses.\n  --no-prompt   Same as not specifying a TTY; useful in CI/scripted contexts.\n\n${pc.bold('Examples:')}\n  $ ${pc.cyan('autonomos init')}\n  $ ${pc.cyan('autonomos init --harness cline')}\n  $ ${pc.cyan('autonomos init --harness cline --harness claude-code')}\n  $ ${pc.cyan('autonomos init --all')}\n  $ ${pc.cyan('autonomos init --dry-run')}\n  $ ${pc.cyan('cd my-project && autonomos init')}\n`\n    )\n    .option('-n, --dry-run', 'Preview what would be created without writing files')\n    .option(\n        '--harness <name...>',\n        'Install workflows for the specified harness id(s); skip the prompt'\n    )\n    .option('--all', 'Install workflows for all known harnesses; skip the prompt')\n    .option('--no-prompt', 'Skip the interactive harness prompt (use with --harness or --all)')\n    .action(\n        async (opts: { dryRun?: boolean; harness?: string[]; all?: boolean; prompt?: boolean }) => {\n            try {\n                const result = await init({\n                    dryRun: opts.dryRun,\n                    harnesses: opts.harness,\n                    all: opts.all,\n                    noPrompt: opts.prompt === false,\n                })\n\n                if (!result.success) {\n                    console.error(pc.red(`\\n❌ ${result.message}`))\n                    process.exit(1)\n                }\n\n                if (result.dryRun) {\n                    console.log(pc.cyan(`\\n🔍 ${result.message} (dry-run)`))\n                } else {\n                    console.log(pc.green(`\\n✅ ${result.message}`))\n                }\n\n                if (result.created.length > 0) {\n                    console.log(`\\n${pc.bold(result.dryRun ? 'Would create:' : 'Created:')}`)\n                    result.created.forEach(file =>\n                        console.log(`  ${pc.blue('📄')} ${pc.white(file)}`)\n                    )\n                }\n\n                if (result.harnessFiles && result.harnessFiles.length > 0) {\n                    console.log(`\\n${pc.bold('Harness workflow files:')}`)\n                    result.harnessFiles.forEach(file =>\n                        console.log(`  ${pc.cyan('⚙️ ')} ${pc.white(file)}`)\n                    )\n                }\n\n                if (result.warnings.length > 0) {\n                    console.log(pc.yellow('\\nWarnings:'))\n                    result.warnings.forEach(warn => console.log(`  ${pc.yellow('⚠️')}  ${warn}`))\n                }\n            } catch (err) {\n                const message = err instanceof Error ? err.message : String(err)\n                console.error(pc.red(`\\n❌ ${message}`))\n                process.exit(1)\n            }\n        }\n    )\n\nprogram\n    .command('update')\n    .description('Update the Protocol to the latest version')\n    .addHelpText(\n        'after',\n        `\nThis command updates ${pc.white('PROTOCOL.md')} to the latest version embedded in the CLI.\nOnly ${pc.white('PROTOCOL.md')} is modified; your ${pc.white('TASKS.md')} and ${pc.white('AGENT.md')} files are preserved.\n\n${pc.bold('Version comparison:')}\n  - If your project has an older version: Updates to the new version\n  - If your project has a newer version: Warns you to update the CLI\n  - If versions match: No action needed\n\n${pc.bold('Examples:')}\n  $ ${pc.cyan('autonomos update')}\n`\n    )\n    .action(() => {\n        const result = update()\n\n        if (!result.success) {\n            if (result.cliOutdated) {\n                console.error(pc.yellow(`\\n⚠️  ${result.message}`))\n            } else {\n                console.error(pc.red(`\\n❌ ${result.message}`))\n            }\n            process.exit(1)\n        }\n\n        console.log(pc.green(`\\n✅ ${result.message}`))\n    })\n\nprogram\n    .command('status')\n    .description('Show project status and task summary')\n    .addHelpText(\n        'after',\n        `\nDisplays information about the current project:\n  - Protocol version\n  - CLI version used for initialization\n  - Task summary (todo, in-progress, done, blocked)\n\n${pc.bold('Examples:')}\n  $ ${pc.cyan('autonomos status')}\n`\n    )\n    .action(() => {\n        const result = status()\n\n        if (!result.success) {\n            console.error(pc.red(`\\n❌ ${result.message}`))\n            process.exit(1)\n        }\n\n        console.log(\n            `\\n${pc.bold('📦 Protocol')} ${pc.green(`v${result.protocolVersion}`)} ${pc.dim(`(CLI v${result.cliVersion})`)}`\n        )\n\n        if (result.taskSummary) {\n            const s = result.taskSummary\n            console.log(`\\n${pc.bold('📋 Tasks:')} ${pc.cyan(s.total)} total`)\n            console.log(`   ${pc.white('⬜ Todo:')} ${pc.white(s.todo)}`)\n            console.log(`   ${pc.blue('🔄 In Progress:')} ${pc.blue(s.inProgress)}`)\n            console.log(`   ${pc.green('✅ Done:')} ${pc.green(s.done)}`)\n            if (s.blocked > 0) {\n                console.log(`   ${pc.red('🚫 Blocked:')} ${pc.red(s.blocked)}`)\n            }\n        }\n    })\n\nprogram\n    .command('agents')\n    .description('List all AGENT.md files in the project, or the ancestor chain for a path')\n    .argument(\n        '[path]',\n        'Optional file or folder. When provided, return the ordered list of ancestor AGENT.md files (root -> target) instead of the full tree.'\n    )\n    .option('-a, --all', 'In tree mode: search from project root instead of current directory')\n    .addHelpText(\n        'after',\n        `\nThis command has two modes:\n\n${pc.bold('Tree mode')} (default, or with ${pc.cyan('--all')}):\n  Discover and display all ${pc.white('AGENT.md')} files in a tree structure.\n  Used at session start to get the broader fractal picture of the project.\n\n${pc.bold('Ancestors mode')} (with a positional ${pc.cyan('<path>')} argument):\n  Return the ordered list of ${pc.white('AGENT.md')} files on the path from the\n  target up to the project root. Root-first; non-existent ancestors are\n  silently skipped. Used at task start to get the precise fractal context\n  for the file or folder being worked on.\n\n${pc.bold('Examples:')}\n  $ ${pc.cyan('autonomos agents')}                                    # Tree, from current dir\n  $ ${pc.cyan('autonomos agents --all')}                              # Tree, from project root\n  $ ${pc.cyan('autonomos agents apps/web')}                           # Ancestors for apps/web\n  $ ${pc.cyan('autonomos agents apps/web/components/ui/button.tsx')}  # Ancestors for a file\n`\n    )\n    .action((path: string | undefined, opts: { all?: boolean }) => {\n        const result = agents({ all: opts.all, target: path })\n\n        if (!result.success) {\n            console.error(\n                pc.red(`\n❌ ${result.message}`)\n            )\n            process.exit(1)\n        }\n\n        if (result.mode === 'ancestors') {\n            console.log(\n                pc.cyan(`\n🔍 ${result.message}`)\n            )\n        } else {\n            console.log('\\n' + (result.tree ?? result.message))\n            console.log(\n                pc.dim(`\n${result.message}`)\n            )\n        }\n    })\n\nprogram\n    .command('version')\n    .description('Show the current Protocol version')\n    .action(() => {\n        console.log(\n            `${pc.bold('Agent Protocol')} ${pc.green(`v${PROTOCOL_VERSION}`)} ${pc.dim(`(CLI v${CLI_VERSION})`)}`\n        )\n    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package/package.json

@@ -1,10 +1,10 @@
 {
   "name": "@autonomos/cli",
-  "version": "0.0.2",
+  "version": "0.1.0",
   "description": "CLI tool for the Autonomos Agent Protocol",
   "type": "module",
   "bin": {
-    "autonomos": "./dist/index.mjs"
+    "cli": "./dist/index.mjs"
   },
   "keywords": [
     "cli",
@@ -37,17 +37,17 @@
   "dependencies": {
     "commander": "^14.0.2",
     "picocolors": "1.1.1",
-    "@autonomos/core": "0.0.2"
+    "@inquirer/prompts": "^7.0.0",
+    "@autonomos/core": "0.1.0"
   },
   "devDependencies": {
+    "@tala-tools/eslint": "0.1.3",
+    "@tala-tools/prettier": "0.0.3",
+    "@tala-tools/tsconfig": "0.0.1",
+    "@tala-tools/tsdown": "0.1.3",
     "@types/node": "^25.0.3",
-    "typescript": "^5.0.0",
-    "@repo/eslint": "1.0.0",
-    "@repo/prettier": "1.0.0",
-    "@repo/tsdown": "1.0.0"
+    "typescript": "^5.0.0"
   },
-  "main": "./dist/index.mjs",
-  "module": "./dist/index.mjs",
   "types": "./dist/index.d.mts",
   "exports": {
     ".": "./dist/index.mjs",
@@ -61,7 +61,7 @@
     "format:check": "prettier \"**/*\" --ignore-unknown --list-different",
     "format:fix": "prettier \"**/*\" --ignore-unknown --write",
     "clean": "rimraf node_modules dist LICENSE",
-    "typecheck": "tsc -p tsconfig.json --noEmit",
+    "typecheck": "tsgo --noEmit",
     "test": "vitest",
     "test:ui": "vitest --ui",
     "test:run": "vitest run",